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	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
KLHL17	339451	broad.mit.edu	37	1	898538	898538	+	Silent	SNP	G	A	A	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	
AGRN	375790	broad.mit.edu	37	1	978991	978991	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
SDF4	51150	broad.mit.edu	37	1	1154242	1154242	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
ATAD3B	83858	broad.mit.edu	37	1	1421557	1421557	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
WDR8	49856	broad.mit.edu	37	1	3564057	3564057	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
LRRC47	57470	broad.mit.edu	37	1	3697778	3697778	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
KIAA0562	9731	broad.mit.edu	37	1	3768907	3768907	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
AJAP1	55966	broad.mit.edu	37	1	4772104	4772104	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
NPHP4	261734	broad.mit.edu	37	1	5925274	5925274	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
ACOT7	11332	broad.mit.edu	37	1	6341163	6341163	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
CAMTA1	23261	broad.mit.edu	37	1	7724391	7724391	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
SLC45A1	50651	broad.mit.edu	37	1	8384399	8384399	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.014410	0	0	
PIK3CD	5293	broad.mit.edu	37	1	9777080	9777080	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
CLSTN1	22883	broad.mit.edu	37	1	9795179	9795179	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.002450	0	0	
UBE4B	10277	broad.mit.edu	37	1	10211616	10211616	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
KIF1B	23095	broad.mit.edu	37	1	10381811	10381811	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
KIF1B	23095	broad.mit.edu	37	1	10397153	10397153	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
MASP2	10747	broad.mit.edu	37	1	11105575	11105575	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
C1orf187	374946	broad.mit.edu	37	1	11766661	11766661	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
PRDM2	7799	broad.mit.edu	37	1	14108285	14108285	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
PRDM2	7799	broad.mit.edu	37	1	14108339	14108339	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
TMEM51	55092	broad.mit.edu	37	1	15541903	15541903	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
SPEN	23013	broad.mit.edu	37	1	16199578	16199578	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
SPEN	23013	broad.mit.edu	37	1	16255224	16255224	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
CLCNKA	1187	broad.mit.edu	37	1	16355671	16355671	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
EPHA2	1969	broad.mit.edu	37	1	16475193	16475193	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
NECAP2	55707	broad.mit.edu	37	1	16767271	16767271	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
NBPF1	55672	broad.mit.edu	37	1	16913558	16913558	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
MST1P2	11209	broad.mit.edu	37	1	16974565	16974565	+	RNA	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:16974565A>G	uc009vow.2	+	5		c.1375A>G			MST1P2_uc010ocg.1_RNA|MST1P2_uc010och.1_RNA|MST1P2_uc010oci.1_RNA|MST1P2_uc001azk.2_RNA|MST1P2_uc001azl.3_RNA|MST1P2_uc009vox.2_RNA|MST1P2_uc001azm.3_RNA					Homo sapiens cDNA FLJ53774 complete cds, moderately similar to Hepatocyte growth factor-like protein precursor.												0						CTGCTTAGAGACCTTCGGGAG	0.672													7	111					0	0	0.004482	0	0	
MST1P2	11209	broad.mit.edu	37	1	16976732	16976732	+	RNA	SNP	C	T	T	rs9661418		TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:16976732C>T	uc010och.1	+	14		c.2453C>T			MST1P2_uc001azl.3_RNA|MST1P2_uc009vox.2_RNA|MST1P2_uc001azm.3_RNA	NR_027504				Homo sapiens cDNA FLJ43241 fis, clone HEART1000010, weakly  similar to Hepatocyte growth factor-like protein precursor.												0						CTGGGTTAGGCCCAGCCTTGA	0.428													5	109					0	0	0.001984	0	0	
PADI2	11240	broad.mit.edu	37	1	17418998	17418998	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
UBR4	23352	broad.mit.edu	37	1	19473418	19473418	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
AKR7A2	8574	broad.mit.edu	37	1	19632510	19632510	+	Splice_Site	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.002780	0	0	
MUL1	79594	broad.mit.edu	37	1	20827485	20827485	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
PINK1	65018	broad.mit.edu	37	1	20971106	20971106	+	Silent	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
HSPG2	3339	broad.mit.edu	37	1	22158013	22158013	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
CDC42	998	broad.mit.edu	37	1	22417930	22417930	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
EPHB2	2048	broad.mit.edu	37	1	23111412	23111412	+	Silent	SNP	G	A	A	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	
KDM1A	23028	broad.mit.edu	37	1	23376978	23376978	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
KDM1A	23028	broad.mit.edu	37	1	23399803	23399803	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
TCEA3	6920	broad.mit.edu	37	1	23751214	23751214	+	Translation_Start_Site	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
C1orf128	57095	broad.mit.edu	37	1	24113776	24113776	+	Silent	SNP	C	T	T	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	0.002450	0	0	
MYOM3	127294	broad.mit.edu	37	1	24421461	24421461	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
GRHL3	57822	broad.mit.edu	37	1	24664485	24664485	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
MAN1C1	57134	broad.mit.edu	37	1	26013011	26013011	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.006230	0	0	
C1orf135	79000	broad.mit.edu	37	1	26164013	26164013	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.003080	0	0	
ARID1A	8289	broad.mit.edu	37	1	27087503	27087503	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.003330	0	0	
PIGV	55650	broad.mit.edu	37	1	27121133	27121133	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
MAP3K6	9064	broad.mit.edu	37	1	27688286	27688286	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
GPR3	2827	broad.mit.edu	37	1	27721144	27721144	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
AHDC1	27245	broad.mit.edu	37	1	27875576	27875576	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
PTAFR	5724	broad.mit.edu	37	1	28477221	28477221	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
GMEB1	10691	broad.mit.edu	37	1	29016643	29016643	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
SFRS4	6429	broad.mit.edu	37	1	29475692	29475692	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
PTPRU	10076	broad.mit.edu	37	1	29639170	29639170	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
MATN1	4146	broad.mit.edu	37	1	31189044	31189044	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
MATN1	4146	broad.mit.edu	37	1	31194406	31194406	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.014410	0	0	
SDC3	9672	broad.mit.edu	37	1	31349583	31349583	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
SNRNP40	9410	broad.mit.edu	37	1	31769597	31769597	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.002780	0	0	
ZCCHC17	51538	broad.mit.edu	37	1	31821730	31821730	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
HCRTR1	3061	broad.mit.edu	37	1	32087173	32087173	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.014410	0	0	
COL16A1	1307	broad.mit.edu	37	1	32131193	32131193	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.006320	0	0	
KHDRBS1	10657	broad.mit.edu	37	1	32502514	32502514	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
ZBTB8A	653121	broad.mit.edu	37	1	33060697	33060697	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
TMEM54	113452	broad.mit.edu	37	1	33363782	33363782	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
TRIM62	55223	broad.mit.edu	37	1	33612784	33612784	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
PHC2	1912	broad.mit.edu	37	1	33836082	33836082	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.002780	0	0	
HMGB4	127540	broad.mit.edu	37	1	34329879	34329879	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
CSMD2	114784	broad.mit.edu	37	1	34401359	34401359	+	Splice_Site	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
GJA4	2701	broad.mit.edu	37	1	35260745	35260745	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
KIAA0319L	79932	broad.mit.edu	37	1	35916003	35916003	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.008740	0	0	
EIF2C1	26523	broad.mit.edu	37	1	36379873	36379873	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
EIF2C1	26523	broad.mit.edu	37	1	36383300	36383300	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.014410	0	0	
COL8A2	1296	broad.mit.edu	37	1	36564002	36564002	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
C1orf113	79729	broad.mit.edu	37	1	36786335	36786335	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
CSF3R	1441	broad.mit.edu	37	1	36935310	36935310	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
SNIP1	79753	broad.mit.edu	37	1	38006327	38006327	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.014410	0	0	
DNALI1	7802	broad.mit.edu	37	1	38027281	38027281	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
EPHA10	284656	broad.mit.edu	37	1	38185714	38185714	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.003080	0	0	
SF3A3	10946	broad.mit.edu	37	1	38453481	38453481	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.014410	0	0	
MACF1	23499	broad.mit.edu	37	1	39549962	39549962	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
MACF1	23499	broad.mit.edu	37	1	39750009	39750009	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
MACF1	23499	broad.mit.edu	37	1	39853184	39853184	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.014410	0	0	
HPCAL4	51440	broad.mit.edu	37	1	40149793	40149793	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
PPT1	5538	broad.mit.edu	37	1	40546147	40546147	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.014410	0	0	
DEM1	64789	broad.mit.edu	37	1	40981063	40981063	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
SLC2A1	6513	broad.mit.edu	37	1	43393358	43393358	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
WDR65	149465	broad.mit.edu	37	1	43647224	43647224	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
KIAA0467	23334	broad.mit.edu	37	1	43906258	43906258	+	Splice_Site	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
PTPRF	5792	broad.mit.edu	37	1	44054460	44054460	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.004990	0	0	
RPS8	6202	broad.mit.edu	37	1	45244276	45244276	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.004990	0	0	
PLK3	1263	broad.mit.edu	37	1	45271337	45271337	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.003080	0	0	
EIF2B3	8891	broad.mit.edu	37	1	45345614	45345614	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
HECTD3	79654	broad.mit.edu	37	1	45472378	45472378	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.006320	0	0	
ZSWIM5	57643	broad.mit.edu	37	1	45484973	45484973	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
ZSWIM5	57643	broad.mit.edu	37	1	45506099	45506099	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
TOE1	114034	broad.mit.edu	37	1	45808127	45808127	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.014410	0	0	
MAST2	23139	broad.mit.edu	37	1	46489481	46489481	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
FAAH	2166	broad.mit.edu	37	1	46874214	46874214	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.003080	0	0	
KIAA0494	9813	broad.mit.edu	37	1	47155282	47155282	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
SLC5A9	200010	broad.mit.edu	37	1	48701407	48701407	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.002780	0	0	
FAF1	11124	broad.mit.edu	37	1	51425455	51425455	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
RAB3B	5865	broad.mit.edu	37	1	52403029	52403029	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.014410	0	0	
PRPF38A	84950	broad.mit.edu	37	1	52870494	52870494	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.014410	0	0	
ACOT11	26027	broad.mit.edu	37	1	55067074	55067074	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
FAM151A	338094	broad.mit.edu	37	1	55075118	55075118	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
C1orf175	374977	broad.mit.edu	37	1	55118738	55118738	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
TTC4	7268	broad.mit.edu	37	1	55182282	55182282	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
PRKAA2	5563	broad.mit.edu	37	1	57169936	57169936	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
MYSM1	114803	broad.mit.edu	37	1	59139300	59139300	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
HOOK1	51361	broad.mit.edu	37	1	60309201	60309201	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
HOOK1	51361	broad.mit.edu	37	1	60331559	60331559	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
INADL	10207	broad.mit.edu	37	1	62228824	62228824	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.003080	0	0	
KANK4	163782	broad.mit.edu	37	1	62728927	62728927	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.003080	0	0	
DOCK7	85440	broad.mit.edu	37	1	62979473	62979473	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.014410	0	0	
LEPR	3953	broad.mit.edu	37	1	66081718	66081718	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
MIER1	57708	broad.mit.edu	37	1	67437384	67437384	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
IL23R	149233	broad.mit.edu	37	1	67635241	67635241	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.014410	0	0	
IL12RB2	3595	broad.mit.edu	37	1	67861635	67861635	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.014410	0	0	
WLS	79971	broad.mit.edu	37	1	68564361	68564361	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
FPGT	8790	broad.mit.edu	37	1	74671452	74671452	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
C1orf173	127254	broad.mit.edu	37	1	75038657	75038657	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
ZZZ3	26009	broad.mit.edu	37	1	78050227	78050227	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.003080	0	0	
ZZZ3	26009	broad.mit.edu	37	1	78097960	78097960	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.014410	0	0	
WDR63	126820	broad.mit.edu	37	1	85563328	85563328	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
COL24A1	255631	broad.mit.edu	37	1	86591704	86591704	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
CLCA1	1179	broad.mit.edu	37	1	86947904	86947904	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
CLCA3P	9629	broad.mit.edu	37	1	87102526	87102526	+	RNA	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:87102526A>G	uc010osh.1	+	4		c.510A>G				NR_024604				Synthetic construct DNA, clone: pF1KB7225, Homo sapiens CLCA3 gene for chloride channel, calcium activated, family member 3, without stop codon, in Flexi system.												0						GGTGGGGAGTATTTGATGAGT	0.363													15	81					0	0	0.002450	0	0	
RBMXL1	494115	broad.mit.edu	37	1	89449460	89449460	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.014410	0	0	
GBP1	2633	broad.mit.edu	37	1	89519089	89519089	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
GBP2	2634	broad.mit.edu	37	1	89582734	89582734	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
LRRC8B	23507	broad.mit.edu	37	1	90050223	90050223	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
ZNF326	284695	broad.mit.edu	37	1	90478719	90478719	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
ZNF644	84146	broad.mit.edu	37	1	91405022	91405022	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
ZNF644	84146	broad.mit.edu	37	1	91405907	91405907	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
ZNF644	84146	broad.mit.edu	37	1	91406587	91406587	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
EVI5	7813	broad.mit.edu	37	1	92979436	92979436	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
DNTTIP2	30836	broad.mit.edu	37	1	94335492	94335492	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
ABCA4	24	broad.mit.edu	37	1	94528845	94528845	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
RWDD3	25950	broad.mit.edu	37	1	95710198	95710198	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.004990	0	0	
DPYD	1806	broad.mit.edu	37	1	98206022	98206022	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
LPPR5	163404	broad.mit.edu	37	1	99380342	99380342	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
AGL	178	broad.mit.edu	37	1	100366349	100366349	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.003080	0	0	
HIAT1	64645	broad.mit.edu	37	1	100515493	100515493	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
RTCD1	8634	broad.mit.edu	37	1	100736176	100736176	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.014410	0	0	
CDC14A	8556	broad.mit.edu	37	1	100928305	100928305	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
SLC30A7	148867	broad.mit.edu	37	1	101431476	101431476	+	Splice_Site	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
DPH5	51611	broad.mit.edu	37	1	101458257	101458257	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.014410	0	0	
COL11A1	1301	broad.mit.edu	37	1	103474066	103474066	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:103474066G>C	uc001dul.2	-	15	1954	c.1636C>G	c.(1636-1638)CCT>GCT	p.P546A	COL11A1_uc001duk.2_5'UTR|COL11A1_uc001dum.2_Missense_Mutation_p.P558A|COL11A1_uc001dun.2_Missense_Mutation_p.P507A|COL11A1_uc009weh.2_Missense_Mutation_p.P430A	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	546	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)		GATGAACCAGGCCCCCCCTAT	0.303													28	74					0	0	0.013726	0	0	
C1orf194	127003	broad.mit.edu	37	1	109649218	109649218	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
CELSR2	1952	broad.mit.edu	37	1	109813589	109813589	+	Silent	SNP	T	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.014410	0	0	
AMPD2	271	broad.mit.edu	37	1	110172064	110172064	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.014410	0	0	
EPS8L3	79574	broad.mit.edu	37	1	110301240	110301240	+	Silent	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
AHCYL1	10768	broad.mit.edu	37	1	110558120	110558120	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
SLC16A4	9122	broad.mit.edu	37	1	110925584	110925584	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
PROK1	84432	broad.mit.edu	37	1	110996681	110996681	+	Silent	SNP	C	T	T	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	
DENND2D	79961	broad.mit.edu	37	1	111738536	111738536	+	Splice_Site	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
ADORA3	140	broad.mit.edu	37	1	112045959	112045959	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
DDX20	11218	broad.mit.edu	37	1	112299330	112299330	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
KCND3	3752	broad.mit.edu	37	1	112329582	112329582	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
CAPZA1	829	broad.mit.edu	37	1	113192040	113192040	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
SLC16A1	6566	broad.mit.edu	37	1	113460498	113460498	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
LRIG2	9860	broad.mit.edu	37	1	113653136	113653136	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
LRIG2	9860	broad.mit.edu	37	1	113657106	113657106	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
OLFML3	56944	broad.mit.edu	37	1	114524259	114524259	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
AMPD1	270	broad.mit.edu	37	1	115226954	115226954	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
Unknown	0	broad.mit.edu	37	1	121116689	121116689	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:121116689C>T	uc001eis.2	+	3	284	c.216C>T	c.(214-216)CAC>CAT	p.H72H		NM_001042758	NP_001036223			SLIT-ROBO Rho GTPase activating protein 2																		CTTTTCAGCACCAAGCCAAGT	0.403													5	60					0	0	0.001168	0	0	
NBPF9	400818	broad.mit.edu	37	1	144828665	144828665	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.014410	0	0	
ANKRD35	148741	broad.mit.edu	37	1	145560171	145560171	+	Silent	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
ANKRD35	148741	broad.mit.edu	37	1	145562258	145562258	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
Unknown	0	broad.mit.edu	37	1	148891665	148891665	+	RNA	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:148891665T>C	uc009wkv.1	+	9		c.967T>C								Homo sapiens cDNA, FLJ17483.																		TAAATCAGAATAGCGTGGCCA	0.398													7	162					0	0	0.001855	0	0	
HIST2H2AC	8338	broad.mit.edu	37	1	149858676	149858676	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
HIST2H2AB	317772	broad.mit.edu	37	1	149859112	149859112	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
ECM1	1893	broad.mit.edu	37	1	150483672	150483672	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
CTSS	1520	broad.mit.edu	37	1	150724313	150724313	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
SETDB1	9869	broad.mit.edu	37	1	150915397	150915397	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
GABPB2	126626	broad.mit.edu	37	1	151062940	151062940	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
SELENBP1	8991	broad.mit.edu	37	1	151339310	151339310	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
POGZ	23126	broad.mit.edu	37	1	151378275	151378275	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.014410	0	0	
CGN	57530	broad.mit.edu	37	1	151491656	151491656	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.014410	0	0	
CGN	57530	broad.mit.edu	37	1	151502450	151502450	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
CGN	57530	broad.mit.edu	37	1	151502999	151502999	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.006320	0	0	
SNX27	81609	broad.mit.edu	37	1	151664929	151664929	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.003080	0	0	
FLG	2312	broad.mit.edu	37	1	152286065	152286065	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.014410	1	0	
JTB	10899	broad.mit.edu	37	1	153947257	153947257	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
JTB	10899	broad.mit.edu	37	1	153949675	153949675	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.003330	0	0	
UBAP2L	9898	broad.mit.edu	37	1	154227697	154227697	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
ATP8B2	57198	broad.mit.edu	37	1	154315770	154315770	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
ATP8B2	57198	broad.mit.edu	37	1	154317917	154317917	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.014410	0	0	
SHC1	6464	broad.mit.edu	37	1	154938847	154938847	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
HCN3	57657	broad.mit.edu	37	1	155252316	155252316	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
HCN3	57657	broad.mit.edu	37	1	155257627	155257627	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.002450	0	0	
ARHGEF2	9181	broad.mit.edu	37	1	155920975	155920975	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.003080	0	0	
ARHGEF2	9181	broad.mit.edu	37	1	155932848	155932848	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
TMEM79	84283	broad.mit.edu	37	1	156256064	156256064	+	Silent	SNP	C	T	T	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	
RHBG	57127	broad.mit.edu	37	1	156352561	156352561	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
BCAN	63827	broad.mit.edu	37	1	156621381	156621381	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
ARHGEF11	9826	broad.mit.edu	37	1	156917590	156917590	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
FCRL2	79368	broad.mit.edu	37	1	157738348	157738348	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.014410	0	0	
OR6Y1	391112	broad.mit.edu	37	1	158517519	158517519	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
IGSF9	57549	broad.mit.edu	37	1	159902365	159902365	+	Silent	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
PIGM	93183	broad.mit.edu	37	1	160000350	160000350	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
ATP1A2	477	broad.mit.edu	37	1	160099084	160099084	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
ATP1A2	477	broad.mit.edu	37	1	160099153	160099153	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
USF1	7391	broad.mit.edu	37	1	161011634	161011634	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
DEDD	9191	broad.mit.edu	37	1	161092087	161092087	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
NR1I3	9970	broad.mit.edu	37	1	161203070	161203070	+	Silent	SNP	T	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.014410	0	0	
FCGR2A	2212	broad.mit.edu	37	1	161487831	161487831	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
UHMK1	127933	broad.mit.edu	37	1	162467856	162467856	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
DDR2	4921	broad.mit.edu	37	1	162731167	162731167	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
RXRG	6258	broad.mit.edu	37	1	165398092	165398092	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
ADCY10	55811	broad.mit.edu	37	1	167825464	167825464	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
F5	2153	broad.mit.edu	37	1	169510030	169510030	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.003330	0	0	
C1orf129	80133	broad.mit.edu	37	1	170940930	170940930	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.014410	0	0	
BAT2L2	23215	broad.mit.edu	37	1	171505354	171505354	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
C1orf9	51430	broad.mit.edu	37	1	172538216	172538216	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.003080	1	0	
SLC9A11	284525	broad.mit.edu	37	1	173493985	173493985	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
KLHL20	27252	broad.mit.edu	37	1	173751271	173751271	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
TNR	7143	broad.mit.edu	37	1	175299243	175299243	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
TNR	7143	broad.mit.edu	37	1	175365680	175365680	+	Missense_Mutation	SNP	G	A	A	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	0.004990	0	0	
ABL2	27	broad.mit.edu	37	1	179090927	179090927	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
CEP350	9857	broad.mit.edu	37	1	180049727	180049727	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.003080	0	0	
CACNA1E	777	broad.mit.edu	37	1	181620510	181620510	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
FAM129A	116496	broad.mit.edu	37	1	184868364	184868364	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
C1orf25	81627	broad.mit.edu	37	1	185113148	185113148	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
HMCN1	83872	broad.mit.edu	37	1	185897791	185897791	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
HMCN1	83872	broad.mit.edu	37	1	185984507	185984507	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.003080	0	0	
PLA2G4A	5321	broad.mit.edu	37	1	186919810	186919810	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
KCNT2	343450	broad.mit.edu	37	1	196227322	196227322	+	Splice_Site	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
KCNT2	343450	broad.mit.edu	37	1	196227479	196227479	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.002450	0	0	
ASPM	259266	broad.mit.edu	37	1	197073120	197073120	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
ZBTB41	360023	broad.mit.edu	37	1	197144177	197144177	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
ZBTB41	360023	broad.mit.edu	37	1	197145784	197145784	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
CAMSAP1L1	23271	broad.mit.edu	37	1	200817864	200817864	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.003080	0	0	
CACNA1S	779	broad.mit.edu	37	1	201012511	201012511	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.014410	0	0	
CACNA1S	779	broad.mit.edu	37	1	201027620	201027620	+	Splice_Site	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
CACNA1S	779	broad.mit.edu	37	1	201058496	201058496	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
IGFN1	91156	broad.mit.edu	37	1	201183362	201183362	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
IGFN1	91156	broad.mit.edu	37	1	201187691	201187691	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
ELF3	1999	broad.mit.edu	37	1	201983122	201983122	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
ELF3	1999	broad.mit.edu	37	1	201984339	201984339	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
LGR6	59352	broad.mit.edu	37	1	202287753	202287753	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
TMEM183A	92703	broad.mit.edu	37	1	202989959	202989959	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
SOX13	9580	broad.mit.edu	37	1	204091106	204091106	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
CNTN2	6900	broad.mit.edu	37	1	205030997	205030997	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
CDK18	5129	broad.mit.edu	37	1	205492416	205492416	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
ELK4	2005	broad.mit.edu	37	1	205592853	205592853	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
PM20D1	148811	broad.mit.edu	37	1	205801816	205801816	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
IKBKE	9641	broad.mit.edu	37	1	206649592	206649592	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
DYRK3	8444	broad.mit.edu	37	1	206822274	206822274	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.003080	0	0	
CR1	1378	broad.mit.edu	37	1	207785082	207785082	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
PLXNA2	5362	broad.mit.edu	37	1	208225688	208225688	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
CAMK1G	57172	broad.mit.edu	37	1	209785386	209785386	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.004990	1	0	
LAMB3	3914	broad.mit.edu	37	1	209800773	209800773	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
NEK2	4751	broad.mit.edu	37	1	211847636	211847636	+	Splice_Site	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
INTS7	25896	broad.mit.edu	37	1	212141247	212141247	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
DTL	51514	broad.mit.edu	37	1	212254037	212254037	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
PTPN14	5784	broad.mit.edu	37	1	214557902	214557902	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.014410	0	0	
CENPF	1063	broad.mit.edu	37	1	214826249	214826249	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
KCTD3	51133	broad.mit.edu	37	1	215792534	215792534	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
SPATA17	128153	broad.mit.edu	37	1	218036154	218036154	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.014410	0	0	
TP53BP2	7159	broad.mit.edu	37	1	223987704	223987704	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
TMEM63A	9725	broad.mit.edu	37	1	226058796	226058796	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
ITPKB	3707	broad.mit.edu	37	1	226924812	226924812	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
OBSCN	84033	broad.mit.edu	37	1	228496809	228496809	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
URB2	9816	broad.mit.edu	37	1	229772691	229772691	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
COG2	22796	broad.mit.edu	37	1	230800261	230800261	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
TTC13	79573	broad.mit.edu	37	1	231061307	231061307	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.014410	0	0	
GNPAT	8443	broad.mit.edu	37	1	231409726	231409726	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
PCNXL2	80003	broad.mit.edu	37	1	233334764	233334764	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.003080	0	0	
SLC35F3	148641	broad.mit.edu	37	1	234444889	234444889	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
ARID4B	51742	broad.mit.edu	37	1	235345681	235345681	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.014410	0	0	
B3GALNT2	148789	broad.mit.edu	37	1	235613631	235613631	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
LYST	1130	broad.mit.edu	37	1	235973006	235973006	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.004990	1	0	
NID1	4811	broad.mit.edu	37	1	236201424	236201424	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
HEATR1	55127	broad.mit.edu	37	1	236735796	236735796	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.004990	0	0	
MTR	4548	broad.mit.edu	37	1	236966835	236966835	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
MTR	4548	broad.mit.edu	37	1	237054567	237054567	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.002780	0	0	
RYR2	6262	broad.mit.edu	37	1	237955558	237955558	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
ZP4	57829	broad.mit.edu	37	1	238045775	238045775	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.002450	0	0	
LOC100130331	100130331	broad.mit.edu	37	1	238090196	238090196	+	RNA	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:238090196T>A	uc010pyc.1	+	12		c.1702T>A				NR_027247				Homo sapiens mRNA; cDNA DKFZp434B2115 (from clone DKFZp434B2115).												0						CTGGCTTTGCTGGGGACGATG	0.602													3	4					0	0	0.004672	0	0	
EXO1	9156	broad.mit.edu	37	1	242020786	242020786	+	Splice_Site	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
HNRNPU	3192	broad.mit.edu	37	1	245021316	245021316	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	
AHCTF1	25909	broad.mit.edu	37	1	247012967	247012967	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.014410	0	0	
NLRP3	114548	broad.mit.edu	37	1	247599444	247599444	+	Splice_Site	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.004990	0	0	
OR2W5	441932	broad.mit.edu	37	1	247655201	247655201	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	0.014410	0	0	
OR2G6	391211	broad.mit.edu	37	1	248685831	248685831	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:248685831A>G	uc001ien.1	+	1	884	c.884A>G	c.(883-885)AAA>AGA	p.K295R		NM_001013355	NP_001013373	Q5TZ20	OR2G6_HUMAN	olfactory receptor, family 2, subfamily G,	295	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)			CTGAGAAACAAAGATGTGAAA	0.453													23	61					0	0	0.004656	0	0	
DIP2C	22982	broad.mit.edu	37	10	410319	410319	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
DIP2C	22982	broad.mit.edu	37	10	445160	445160	+	Splice_Site	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
LARP4B	23185	broad.mit.edu	37	10	888953	888953	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PFKP	5214	broad.mit.edu	37	10	3147695	3147695	+	Splice_Site	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
AKR1C4	1109	broad.mit.edu	37	10	5254588	5254588	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
C10orf18	54906	broad.mit.edu	37	10	5781988	5781988	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
C10orf18	54906	broad.mit.edu	37	10	5788345	5788345	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
C10orf18	54906	broad.mit.edu	37	10	5788629	5788629	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ANKRD16	54522	broad.mit.edu	37	10	5925938	5925938	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
FBXO18	84893	broad.mit.edu	37	10	5963252	5963252	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
PFKFB3	5209	broad.mit.edu	37	10	6257276	6257276	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
USP6NL	9712	broad.mit.edu	37	10	11535138	11535138	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
OPTN	10133	broad.mit.edu	37	10	13166057	13166057	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PHYH	5264	broad.mit.edu	37	10	13337526	13337526	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
FAM171A1	221061	broad.mit.edu	37	10	15325918	15325918	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ITGA8	8516	broad.mit.edu	37	10	15720763	15720763	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
FAM188A	80013	broad.mit.edu	37	10	15875660	15875660	+	Silent	SNP	T	C	C	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	
CUBN	8029	broad.mit.edu	37	10	16967691	16967691	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
PLXDC2	84898	broad.mit.edu	37	10	20453414	20453414	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
C10orf140	387640	broad.mit.edu	37	10	21805019	21805019	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ARHGAP21	57584	broad.mit.edu	37	10	24909045	24909045	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ARHGAP21	57584	broad.mit.edu	37	10	24910013	24910013	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
KIAA1462	57608	broad.mit.edu	37	10	30315149	30315149	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
MTPAP	55149	broad.mit.edu	37	10	30615351	30615351	+	Splice_Site	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF438	220929	broad.mit.edu	37	10	31134236	31134236	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF438	220929	broad.mit.edu	37	10	31138295	31138295	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PARD3	56288	broad.mit.edu	37	10	34620079	34620079	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF33A	7581	broad.mit.edu	37	10	38345137	38345137	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF37B	100129482	broad.mit.edu	37	10	43015767	43015767	+	RNA	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:43015767C>T	uc001jab.3	-	5		c.3433G>A			ZNF37B_uc001jac.3_RNA|ZNF37B_uc001jaa.3_RNA					Homo sapiens cDNA: FLJ23327 fis, clone HEP12630, highly similar to HSZNF37 Homo sapiens ZNF37A mRNA for zinc finger protein.												0						TTTCTCCCCACGTGTGTTCTC	0.418													6	22					0	0	0.001168	0	0	
ALOX5	240	broad.mit.edu	37	10	45891350	45891350	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
GDF2	2658	broad.mit.edu	37	10	48413624	48413624	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
FRMPD2	143162	broad.mit.edu	37	10	49450347	49450347	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
C10orf71	118461	broad.mit.edu	37	10	50531160	50531160	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
PGBD3	267004	broad.mit.edu	37	10	50723435	50723435	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.002780	0	0	
SLC18A3	6572	broad.mit.edu	37	10	50820315	50820315	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
OGDHL	55753	broad.mit.edu	37	10	50954898	50954898	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
MBL2	4153	broad.mit.edu	37	10	54527904	54527904	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
IPMK	253430	broad.mit.edu	37	10	59986902	59986902	+	Splice_Site	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SLC16A9	220963	broad.mit.edu	37	10	61414085	61414085	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CCDC6	8030	broad.mit.edu	37	10	61564176	61564176	+	Splice_Site	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ANK3	288	broad.mit.edu	37	10	61815518	61815518	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ANK3	288	broad.mit.edu	37	10	61835896	61835896	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF365	22891	broad.mit.edu	37	10	64414648	64414648	+	Silent	SNP	G	A	A	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	0.014410	0	0	
EGR2	1959	broad.mit.edu	37	10	64573060	64573060	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
JMJD1C	221037	broad.mit.edu	37	10	64966934	64966934	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
JMJD1C	221037	broad.mit.edu	37	10	65140188	65140188	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
HERC4	26091	broad.mit.edu	37	10	69682730	69682730	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
DNA2	1763	broad.mit.edu	37	10	70231557	70231557	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TET1	80312	broad.mit.edu	37	10	70406352	70406352	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
STOX1	219736	broad.mit.edu	37	10	70644585	70644585	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
HKDC1	80201	broad.mit.edu	37	10	71018574	71018574	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
COL13A1	1305	broad.mit.edu	37	10	71562400	71562400	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
SGPL1	8879	broad.mit.edu	37	10	72628142	72628142	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CDH23	64072	broad.mit.edu	37	10	73464824	73464824	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.003330	0	0	
CCDC109A	90550	broad.mit.edu	37	10	74631136	74631136	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
KIAA0913	23053	broad.mit.edu	37	10	75554018	75554018	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
KIAA0913	23053	broad.mit.edu	37	10	75557598	75557598	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CAMK2G	818	broad.mit.edu	37	10	75576611	75576611	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CAMK2G	818	broad.mit.edu	37	10	75609032	75609032	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
AP3M1	26985	broad.mit.edu	37	10	75897994	75897994	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
MYST4	23522	broad.mit.edu	37	10	76789593	76789593	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
DUPD1	338599	broad.mit.edu	37	10	76797754	76797754	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
DUPD1	338599	broad.mit.edu	37	10	76818210	76818210	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
POLR3A	11128	broad.mit.edu	37	10	79745739	79745739	+	Missense_Mutation	SNP	C	T	T	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	
ZMIZ1	57178	broad.mit.edu	37	10	81050715	81050715	+	Splice_Site	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.008740	1	0	
ZMIZ1	57178	broad.mit.edu	37	10	81058191	81058191	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
C10orf57	80195	broad.mit.edu	37	10	81841641	81841641	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
BMPR1A	657	broad.mit.edu	37	10	88677075	88677075	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
AGAP11	119385	broad.mit.edu	37	10	88768861	88768861	+	Silent	SNP	G	A	A	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	0.014410	0	0	
MINPP1	9562	broad.mit.edu	37	10	89265036	89265036	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
RNLS	55328	broad.mit.edu	37	10	90122340	90122340	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.008740	0	0	
LIPK	643414	broad.mit.edu	37	10	90492016	90492016	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
IFIT2	3433	broad.mit.edu	37	10	91066703	91066703	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
HTR7	3363	broad.mit.edu	37	10	92617294	92617294	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
TNKS2	80351	broad.mit.edu	37	10	93609348	93609348	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
IDE	3416	broad.mit.edu	37	10	94268556	94268556	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MYOF	26509	broad.mit.edu	37	10	95121229	95121229	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
PLCE1	51196	broad.mit.edu	37	10	95790955	95790955	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PLCE1	51196	broad.mit.edu	37	10	96039591	96039591	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
NOC3L	64318	broad.mit.edu	37	10	96109868	96109868	+	Splice_Site	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
HELLS	3070	broad.mit.edu	37	10	96350527	96350527	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
TLL2	7093	broad.mit.edu	37	10	98192586	98192586	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
CRTAC1	55118	broad.mit.edu	37	10	99683046	99683046	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
C10orf28	27291	broad.mit.edu	37	10	99969347	99969347	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
COX15	1355	broad.mit.edu	37	10	101487291	101487291	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PAX2	5076	broad.mit.edu	37	10	102566235	102566235	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
FAM178A	55719	broad.mit.edu	37	10	102684471	102684471	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
LZTS2	84445	broad.mit.edu	37	10	102762542	102762542	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TLX1	3195	broad.mit.edu	37	10	102891794	102891794	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
C10orf76	79591	broad.mit.edu	37	10	103717427	103717427	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PPRC1	23082	broad.mit.edu	37	10	103899979	103899979	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
C10orf95	79946	broad.mit.edu	37	10	104211207	104211207	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
SFXN2	118980	broad.mit.edu	37	10	104491950	104491950	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.003330	0	0	
SFXN2	118980	broad.mit.edu	37	10	104497475	104497475	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CYP17A1	1586	broad.mit.edu	37	10	104591290	104591290	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CNNM2	54805	broad.mit.edu	37	10	104679214	104679214	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.002780	0	0	
PDCD11	22984	broad.mit.edu	37	10	105182764	105182764	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.006320	0	0	
SORCS3	22986	broad.mit.edu	37	10	106974273	106974273	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
DUSP5	1847	broad.mit.edu	37	10	112258064	112258064	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ADRA2A	150	broad.mit.edu	37	10	112838169	112838169	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
GPAM	57678	broad.mit.edu	37	10	113913352	113913352	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
NRAP	4892	broad.mit.edu	37	10	115355426	115355426	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
DCLRE1A	9937	broad.mit.edu	37	10	115612525	115612525	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ADRB1	153	broad.mit.edu	37	10	115804211	115804211	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
TDRD1	56165	broad.mit.edu	37	10	115973165	115973165	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ABLIM1	3983	broad.mit.edu	37	10	116203839	116203839	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ATRNL1	26033	broad.mit.edu	37	10	117309003	117309003	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SLC18A2	6571	broad.mit.edu	37	10	119001291	119001291	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
SLC18A2	6571	broad.mit.edu	37	10	119027216	119027216	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
INPP5F	22876	broad.mit.edu	37	10	121567530	121567530	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SEC23IP	11196	broad.mit.edu	37	10	121677919	121677919	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ACADSB	36	broad.mit.edu	37	10	124800876	124800876	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
BUB3	9184	broad.mit.edu	37	10	124914613	124914613	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
CPXM2	119587	broad.mit.edu	37	10	125539730	125539730	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CPXM2	119587	broad.mit.edu	37	10	125601969	125601969	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
C10orf137	26098	broad.mit.edu	37	10	127451948	127451948	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
BCCIP	56647	broad.mit.edu	37	10	127524753	127524753	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
FAM196A	642938	broad.mit.edu	37	10	128952176	128952176	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MKI67	4288	broad.mit.edu	37	10	129904261	129904261	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
MKI67	4288	broad.mit.edu	37	10	129906745	129906745	+	Missense_Mutation	SNP	G	C	C	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	0.014410	0	0	
Unknown	0	broad.mit.edu	37	10	134628370	134628370	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:134628370C>T	uc010qux.1	-	43	6344	c.6344G>A	c.(6343-6345)AGC>AAC	p.S2115N		NM_017609	NP_060079			Homo sapiens cDNA, FLJ17989.																		CTTCGCTAGGCTTCTCTTTTT	0.602													16	263					0	0	0.006122	0	0	
C10orf93	255352	broad.mit.edu	37	10	134750555	134750555	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
PHRF1	57661	broad.mit.edu	37	11	608885	608885	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
EPS8L2	64787	broad.mit.edu	37	11	723324	723324	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
MUC6	4588	broad.mit.edu	37	11	1027331	1027331	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
MUC2	4583	broad.mit.edu	37	11	1096499	1096499	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
MUC2	4583	broad.mit.edu	37	11	1101162	1101162	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
TOLLIP	54472	broad.mit.edu	37	11	1298340	1298340	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TNNI2	7136	broad.mit.edu	37	11	1861658	1861658	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
TSSC4	10078	broad.mit.edu	37	11	2424406	2424406	+	Silent	SNP	C	T	T	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	
NUP98	4928	broad.mit.edu	37	11	3720570	3720570	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
OR52M1	119772	broad.mit.edu	37	11	4566819	4566819	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
OR52M1	119772	broad.mit.edu	37	11	4567047	4567047	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
TRIM68	55128	broad.mit.edu	37	11	4621976	4621976	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
TRIM6-TRIM34	445372	broad.mit.edu	37	11	5624748	5624748	+	Missense_Mutation	SNP	G	A	A	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	0.002450	0	0	
OR52N1	79473	broad.mit.edu	37	11	5809670	5809670	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
SMPD1	6609	broad.mit.edu	37	11	6413196	6413196	+	Missense_Mutation	SNP	G	A	A	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	
DCHS1	8642	broad.mit.edu	37	11	6649868	6649868	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
OR6A2	8590	broad.mit.edu	37	11	6816234	6816234	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
ZNF214	7761	broad.mit.edu	37	11	7021758	7021758	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
TUB	7275	broad.mit.edu	37	11	8111723	8111723	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
STK33	65975	broad.mit.edu	37	11	8478918	8478918	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
IPO7	10527	broad.mit.edu	37	11	9446771	9446771	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
IPO7	10527	broad.mit.edu	37	11	9452545	9452545	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
IPO7	10527	broad.mit.edu	37	11	9456521	9456521	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
SBF2	81846	broad.mit.edu	37	11	9875254	9875254	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
SBF2	81846	broad.mit.edu	37	11	9990009	9990009	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
CTR9	9646	broad.mit.edu	37	11	10785222	10785222	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CTR9	9646	broad.mit.edu	37	11	10789381	10789381	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CTR9	9646	broad.mit.edu	37	11	10789658	10789658	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
MICAL2	9645	broad.mit.edu	37	11	12234853	12234853	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
MICAL2	9645	broad.mit.edu	37	11	12237834	12237834	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SOX6	55553	broad.mit.edu	37	11	16077437	16077437	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PLEKHA7	144100	broad.mit.edu	37	11	16816142	16816142	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
PIK3C2A	5286	broad.mit.edu	37	11	17150966	17150966	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
KCNJ11	3767	broad.mit.edu	37	11	17408964	17408964	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ABCC8	6833	broad.mit.edu	37	11	17428579	17428579	+	Silent	SNP	G	A	A	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	
KCNC1	3746	broad.mit.edu	37	11	17793376	17793376	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
KCNC1	3746	broad.mit.edu	37	11	17793706	17793706	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MRGPRX4	117196	broad.mit.edu	37	11	18195607	18195607	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
NAV2	89797	broad.mit.edu	37	11	19954827	19954827	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
DBX1	120237	broad.mit.edu	37	11	20177851	20177851	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
NELL1	4745	broad.mit.edu	37	11	20699478	20699478	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
NELL1	4745	broad.mit.edu	37	11	20959366	20959366	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ANO5	203859	broad.mit.edu	37	11	22284591	22284591	+	Splice_Site	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ANO5	203859	broad.mit.edu	37	11	22294393	22294393	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
KIF18A	81930	broad.mit.edu	37	11	28104461	28104461	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
KIF18A	81930	broad.mit.edu	37	11	28112997	28112997	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
MPPED2	744	broad.mit.edu	37	11	30435828	30435828	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
MPPED2	744	broad.mit.edu	37	11	30517060	30517060	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ELP4	26610	broad.mit.edu	37	11	31616422	31616422	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CSTF3	1479	broad.mit.edu	37	11	33117933	33117933	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
CSTF3	1479	broad.mit.edu	37	11	33127542	33127542	+	Splice_Site	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
HIPK3	10114	broad.mit.edu	37	11	33369426	33369426	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
NAT10	55226	broad.mit.edu	37	11	34130297	34130297	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ABTB2	25841	broad.mit.edu	37	11	34194790	34194790	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
TRIM44	54765	broad.mit.edu	37	11	35685113	35685113	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ALKBH3	221120	broad.mit.edu	37	11	43908177	43908177	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
EXT2	2132	broad.mit.edu	37	11	44255775	44255775	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
GYLTL1B	120071	broad.mit.edu	37	11	45947886	45947886	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
DGKZ	8525	broad.mit.edu	37	11	46394198	46394198	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CKAP5	9793	broad.mit.edu	37	11	46829614	46829614	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ARFGAP2	84364	broad.mit.edu	37	11	47198140	47198140	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
C1QTNF4	114900	broad.mit.edu	37	11	47612348	47612348	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MTCH2	23788	broad.mit.edu	37	11	47653245	47653245	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
AGBL2	79841	broad.mit.edu	37	11	47712295	47712295	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
NUP160	23279	broad.mit.edu	37	11	47806489	47806489	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
PTPRJ	5795	broad.mit.edu	37	11	48158680	48158680	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
OR4B1	119765	broad.mit.edu	37	11	48238713	48238713	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
OR4P4	81300	broad.mit.edu	37	11	55406147	55406147	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
OR4C6	219432	broad.mit.edu	37	11	55432731	55432731	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
OR8J3	81168	broad.mit.edu	37	11	55905019	55905019	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
OR5M10	390167	broad.mit.edu	37	11	56344778	56344778	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
OR9G4	283189	broad.mit.edu	37	11	56510841	56510841	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
LRRC55	219527	broad.mit.edu	37	11	56950045	56950045	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	1	0	
LRRC55	219527	broad.mit.edu	37	11	56950151	56950151	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
PRG3	10394	broad.mit.edu	37	11	57146978	57146978	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
OR5B12	390191	broad.mit.edu	37	11	58207279	58207279	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
FAM111B	374393	broad.mit.edu	37	11	58892175	58892175	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
DTX4	23220	broad.mit.edu	37	11	58972212	58972212	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
OSBP	5007	broad.mit.edu	37	11	59361099	59361099	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
PATL1	219988	broad.mit.edu	37	11	59425112	59425112	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CD6	923	broad.mit.edu	37	11	60776004	60776004	+	Splice_Site	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CPSF7	79869	broad.mit.edu	37	11	61179396	61179396	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
AHNAK	79026	broad.mit.edu	37	11	62285270	62285270	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
AHNAK	79026	broad.mit.edu	37	11	62290281	62290281	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
EEF1G	1937	broad.mit.edu	37	11	62327791	62327791	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
INTS5	80789	broad.mit.edu	37	11	62416494	62416494	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SLC22A10	387775	broad.mit.edu	37	11	63066991	63066991	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ATL3	25923	broad.mit.edu	37	11	63426718	63426718	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
DNAJC4	3338	broad.mit.edu	37	11	63999943	63999943	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
GPR137	56834	broad.mit.edu	37	11	64056707	64056707	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	1	0	
MEN1	4221	broad.mit.edu	37	11	64573765	64573765	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ATG2A	23130	broad.mit.edu	37	11	64665443	64665443	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ATG2A	23130	broad.mit.edu	37	11	64666107	64666107	+	Splice_Site	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.003330	0	0	
C11orf85	283129	broad.mit.edu	37	11	64708103	64708103	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
MALAT1	378938	broad.mit.edu	37	11	65271179	65271179	+	RNA	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:65271179G>A	uc010roh.1	+	1		c.5947G>A			uc001ody.2_5'Flank	NR_002819				Homo sapiens clone alpha1 mRNA sequence.												0						TCTTGGGGGGGATTCTTCTCT	0.363													6	90					0	0	0.001168	0	0	
LTBP3	4054	broad.mit.edu	37	11	65307100	65307100	+	Splice_Site	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
EHBP1L1	254102	broad.mit.edu	37	11	65351053	65351053	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
DKFZp761E198	91056	broad.mit.edu	37	11	65546619	65546619	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
YIF1A	10897	broad.mit.edu	37	11	66053174	66053174	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CCDC87	55231	broad.mit.edu	37	11	66358846	66358846	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
RBM14	10432	broad.mit.edu	37	11	66392810	66392810	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
C11orf80	79703	broad.mit.edu	37	11	66571567	66571567	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
PC	5091	broad.mit.edu	37	11	66618339	66618339	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PC	5091	broad.mit.edu	37	11	66639309	66639309	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
KDM2A	22992	broad.mit.edu	37	11	67017751	67017751	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
RAD9A	5883	broad.mit.edu	37	11	67161249	67161249	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PPP1CA	5499	broad.mit.edu	37	11	67168168	67168168	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
PTPRCAP	5790	broad.mit.edu	37	11	67203517	67203517	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
GPR152	390212	broad.mit.edu	37	11	67219255	67219255	+	Missense_Mutation	SNP	G	A	A	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	0.006230	0	0	
CABP2	51475	broad.mit.edu	37	11	67287283	67287283	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
IGHMBP2	3508	broad.mit.edu	37	11	68700870	68700870	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
CTTN	2017	broad.mit.edu	37	11	70265939	70265939	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
NUMA1	4926	broad.mit.edu	37	11	71724239	71724239	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
MRPL48	51642	broad.mit.edu	37	11	73555944	73555944	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SLCO2B1	11309	broad.mit.edu	37	11	74876980	74876980	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
SERPINH1	871	broad.mit.edu	37	11	75280189	75280189	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SERPINH1	871	broad.mit.edu	37	11	75283092	75283092	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
THRSP	7069	broad.mit.edu	37	11	77774985	77774985	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ODZ4	26011	broad.mit.edu	37	11	78467937	78467937	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
PRCP	5547	broad.mit.edu	37	11	82550389	82550389	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
TMEM126B	55863	broad.mit.edu	37	11	85345229	85345229	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CTSC	1075	broad.mit.edu	37	11	88027562	88027562	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
FAT3	120114	broad.mit.edu	37	11	92087727	92087727	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
FAT3	120114	broad.mit.edu	37	11	92533129	92533129	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
HEPHL1	341208	broad.mit.edu	37	11	93837857	93837857	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
PANX1	24145	broad.mit.edu	37	11	93911695	93911695	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
FUT4	2526	broad.mit.edu	37	11	94278118	94278118	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
KDM4DL	390245	broad.mit.edu	37	11	94759243	94759243	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.006230	0	0	
ENDOD1	23052	broad.mit.edu	37	11	94862256	94862256	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CEP57	9702	broad.mit.edu	37	11	95561052	95561052	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
KIAA1377	57562	broad.mit.edu	37	11	101834511	101834511	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
PDGFD	80310	broad.mit.edu	37	11	103866871	103866871	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
DDI1	414301	broad.mit.edu	37	11	103907980	103907980	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
Unknown	0	broad.mit.edu	37	11	104778203	104778203	+	RNA	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:104778203A>G	uc001phy.2	-	1		c.1230T>C			uc001phz.2_RNA|uc001pia.1_Intron					Homo sapiens mRNA; cDNA DKFZp667O0320 (from clone DKFZp667O0320).																		cctGAAGGAAAGCAGCCCATC	0.368													5	15					0	0	0.000602	0	0	
CASP4	837	broad.mit.edu	37	11	104820474	104820474	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ALKBH8	91801	broad.mit.edu	37	11	107403026	107403026	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ALKBH8	91801	broad.mit.edu	37	11	107403094	107403094	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CUL5	8065	broad.mit.edu	37	11	107968446	107968446	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
NPAT	4863	broad.mit.edu	37	11	108044308	108044308	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ATM	472	broad.mit.edu	37	11	108098363	108098363	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ATM	472	broad.mit.edu	37	11	108168081	108168081	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
DDX10	1662	broad.mit.edu	37	11	108559696	108559696	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
POU2AF1	5450	broad.mit.edu	37	11	111228205	111228205	+	Missense_Mutation	SNP	T	C	C	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	
C11orf88	399949	broad.mit.edu	37	11	111385697	111385697	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
SIK2	23235	broad.mit.edu	37	11	111558769	111558769	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PPP2R1B	5519	broad.mit.edu	37	11	111618736	111618736	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
DRD2	1813	broad.mit.edu	37	11	113295190	113295190	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
USP28	57646	broad.mit.edu	37	11	113685907	113685907	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CADM1	23705	broad.mit.edu	37	11	115110994	115110994	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
TAGLN	6876	broad.mit.edu	37	11	117073840	117073840	+	Silent	SNP	G	A	A	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	
PCSK7	9159	broad.mit.edu	37	11	117090382	117090382	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.002780	0	0	
CEP164	22897	broad.mit.edu	37	11	117266307	117266307	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
DSCAML1	57453	broad.mit.edu	37	11	117374691	117374691	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PHLDB1	23187	broad.mit.edu	37	11	118516286	118516286	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
BCL9L	283149	broad.mit.edu	37	11	118770905	118770905	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
HYOU1	10525	broad.mit.edu	37	11	118925262	118925262	+	Missense_Mutation	SNP	C	T	T	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	
HINFP	25988	broad.mit.edu	37	11	119003653	119003653	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
POU2F3	25833	broad.mit.edu	37	11	120175748	120175748	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ARHGEF12	23365	broad.mit.edu	37	11	120343776	120343776	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.003330	0	0	
SORL1	6653	broad.mit.edu	37	11	121481852	121481852	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
C11orf63	79864	broad.mit.edu	37	11	122774696	122774696	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	1	0	
HSPA8	3312	broad.mit.edu	37	11	122931470	122931470	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.002780	0	0	
OR6M1	390261	broad.mit.edu	37	11	123676424	123676424	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
OR4D5	219875	broad.mit.edu	37	11	123810556	123810556	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
OR10S1	219873	broad.mit.edu	37	11	123847770	123847770	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.003330	0	0	
OR8D1	283159	broad.mit.edu	37	11	124180293	124180293	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PANX3	116337	broad.mit.edu	37	11	124487357	124487357	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.006230	0	0	
ESAM	90952	broad.mit.edu	37	11	124624154	124624154	+	Silent	SNP	G	A	A	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	
CDON	50937	broad.mit.edu	37	11	125887164	125887164	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
RPUSD4	84881	broad.mit.edu	37	11	126081527	126081527	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
KIRREL3	84623	broad.mit.edu	37	11	126396434	126396434	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ETS1	2113	broad.mit.edu	37	11	128350194	128350194	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.003330	1	0	
ADAMTS8	11095	broad.mit.edu	37	11	130281492	130281492	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
IGSF9B	22997	broad.mit.edu	37	11	133790518	133790518	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
CACNA1C	775	broad.mit.edu	37	12	2162730	2162730	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
NDUFA9	4704	broad.mit.edu	37	12	4791406	4791406	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
GALNT8	26290	broad.mit.edu	37	12	4848407	4848407	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
VWF	7450	broad.mit.edu	37	12	6230409	6230409	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CHD4	1108	broad.mit.edu	37	12	6696642	6696642	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CHD4	1108	broad.mit.edu	37	12	6700956	6700956	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
GPR162	27239	broad.mit.edu	37	12	6933831	6933831	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:6933831C>T	uc001qqw.1	+	2	1302	c.767C>T	c.(766-768)TCG>TTG	p.S256L	LEPREL2_uc001qqz.1_5'Flank|GPR162_uc010sfn.1_Missense_Mutation_p.S256L|GPR162_uc001qqx.1_Intron|GPR162_uc009zfd.1_Intron|GPR162_uc001qqy.1_5'UTR	NM_019858	NP_062832	Q16538	GP162_HUMAN	G protein-coupled receptor 162 isoform 2	256	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						CGGCGGTCCTCGCTGGATGGC	0.627													19	30					0	0	0.004656	0	0	
ENO2	2026	broad.mit.edu	37	12	7031312	7031312	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
C12orf57	113246	broad.mit.edu	37	12	7054995	7054995	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PTPN6	5777	broad.mit.edu	37	12	7069334	7069334	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SLC2A3	6515	broad.mit.edu	37	12	8083863	8083863	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
C3AR1	719	broad.mit.edu	37	12	8211659	8211659	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
A2ML1	144568	broad.mit.edu	37	12	8982328	8982328	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CLEC1A	51267	broad.mit.edu	37	12	10233996	10233996	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
KLRD1	3824	broad.mit.edu	37	12	10466091	10466091	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
TAS2R30	259293	broad.mit.edu	37	12	11286312	11286312	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
MANSC1	54682	broad.mit.edu	37	12	12483242	12483242	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
DDX47	51202	broad.mit.edu	37	12	12974332	12974332	+	Splice_Site	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
GRIN2B	2904	broad.mit.edu	37	12	13715758	13715758	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
ERP27	121506	broad.mit.edu	37	12	15068460	15068460	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ABCC9	10060	broad.mit.edu	37	12	22025570	22025570	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
KRAS	3845	broad.mit.edu	37	12	25378562	25378562	+	Missense_Mutation	SNP	C	T	T	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	
RASSF8	11228	broad.mit.edu	37	12	26217646	26217646	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ITPR2	3709	broad.mit.edu	37	12	26818903	26818903	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
C12orf11	55726	broad.mit.edu	37	12	27070614	27070614	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
KLHDC5	57542	broad.mit.edu	37	12	27944677	27944677	+	Silent	SNP	C	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
IPO8	10526	broad.mit.edu	37	12	30833414	30833414	+	Splice_Site	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
BICD1	636	broad.mit.edu	37	12	32369202	32369202	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
PKP2	5318	broad.mit.edu	37	12	33031026	33031026	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
SYT10	341359	broad.mit.edu	37	12	33538209	33538209	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ALG10	84920	broad.mit.edu	37	12	34179676	34179676	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
LRRK2	120892	broad.mit.edu	37	12	40677751	40677751	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CNTN1	1272	broad.mit.edu	37	12	41414173	41414173	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CNTN1	1272	broad.mit.edu	37	12	41414195	41414195	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
CNTN1	1272	broad.mit.edu	37	12	41419019	41419019	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ZCRB1	85437	broad.mit.edu	37	12	42707747	42707747	+	Silent	SNP	G	A	A	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	
ZCRB1	85437	broad.mit.edu	37	12	42711240	42711240	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
IRAK4	51135	broad.mit.edu	37	12	44171500	44171500	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ANO6	196527	broad.mit.edu	37	12	45797269	45797269	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ANO6	196527	broad.mit.edu	37	12	45814903	45814903	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
SLC38A4	55089	broad.mit.edu	37	12	47163208	47163208	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
HDAC7	51564	broad.mit.edu	37	12	48183605	48183605	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
VDR	7421	broad.mit.edu	37	12	48251368	48251368	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MLL2	8085	broad.mit.edu	37	12	49425292	49425292	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
MLL2	8085	broad.mit.edu	37	12	49435307	49435307	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
DHH	50846	broad.mit.edu	37	12	49484937	49484937	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
TUBA1B	10376	broad.mit.edu	37	12	49523423	49523423	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TROAP	10024	broad.mit.edu	37	12	49719633	49719633	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
KCNH3	23416	broad.mit.edu	37	12	49934785	49934785	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
AQP2	359	broad.mit.edu	37	12	50348487	50348487	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
RACGAP1	29127	broad.mit.edu	37	12	50387958	50387958	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
LARP4	113251	broad.mit.edu	37	12	50869432	50869432	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TMPRSS12	283471	broad.mit.edu	37	12	51279163	51279163	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
TFCP2	7024	broad.mit.edu	37	12	51497499	51497499	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ACVRL1	94	broad.mit.edu	37	12	52309152	52309152	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ACVRL1	94	broad.mit.edu	37	12	52312813	52312813	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.008740	0	0	
KRT6A	3853	broad.mit.edu	37	12	52885376	52885376	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MFSD5	84975	broad.mit.edu	37	12	53647543	53647543	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
AAAS	8086	broad.mit.edu	37	12	53701632	53701632	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
SP1	6667	broad.mit.edu	37	12	53776296	53776296	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CALCOCO1	57658	broad.mit.edu	37	12	54115379	54115379	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ITGA7	3679	broad.mit.edu	37	12	56086971	56086971	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
DNAJC14	85406	broad.mit.edu	37	12	56221646	56221646	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ERBB3	2065	broad.mit.edu	37	12	56487146	56487146	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ZC3H10	84872	broad.mit.edu	37	12	56515288	56515288	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
TIMELESS	8914	broad.mit.edu	37	12	56817439	56817439	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SDR9C7	121214	broad.mit.edu	37	12	57317808	57317808	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
MYO1A	4640	broad.mit.edu	37	12	57423603	57423603	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
LRP1	4035	broad.mit.edu	37	12	57571369	57571369	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
LRP1	4035	broad.mit.edu	37	12	57573602	57573602	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
LRP1	4035	broad.mit.edu	37	12	57592013	57592013	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
LRP1	4035	broad.mit.edu	37	12	57592261	57592261	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
KIF5A	3798	broad.mit.edu	37	12	57957311	57957311	+	Splice_Site	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
PPM1H	57460	broad.mit.edu	37	12	63195910	63195910	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
SRGAP1	57522	broad.mit.edu	37	12	64505760	64505760	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
IRAK3	11213	broad.mit.edu	37	12	66641827	66641827	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	1	0	
HELB	92797	broad.mit.edu	37	12	66703603	66703603	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
IFNG	3458	broad.mit.edu	37	12	68552014	68552014	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
NUP107	57122	broad.mit.edu	37	12	69135681	69135681	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
CPM	1368	broad.mit.edu	37	12	69250279	69250279	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.008740	0	0	
RAB3IP	117177	broad.mit.edu	37	12	70195448	70195448	+	Silent	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PTPRB	5787	broad.mit.edu	37	12	71029640	71029640	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
LGR5	8549	broad.mit.edu	37	12	71974204	71974204	+	Splice_Site	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
CSRP2	1466	broad.mit.edu	37	12	77253398	77253398	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
E2F7	144455	broad.mit.edu	37	12	77449854	77449854	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
TMTC2	160335	broad.mit.edu	37	12	83359353	83359353	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.008740	0	0	
LRRIQ1	84125	broad.mit.edu	37	12	85450662	85450662	+	Silent	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
RASSF9	9182	broad.mit.edu	37	12	86198792	86198792	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ATP2B1	490	broad.mit.edu	37	12	89996854	89996854	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
EPYC	1833	broad.mit.edu	37	12	91358019	91358019	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PLEKHG7	440107	broad.mit.edu	37	12	93162797	93162797	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
SOCS2	8835	broad.mit.edu	37	12	93968638	93968638	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.006320	0	0	
SOCS2	8835	broad.mit.edu	37	12	93968662	93968662	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PLXNC1	10154	broad.mit.edu	37	12	94580155	94580155	+	Nonsense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
FGD6	55785	broad.mit.edu	37	12	95603554	95603554	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ELK3	2004	broad.mit.edu	37	12	96641161	96641161	+	Silent	SNP	C	T	T	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	0.008740	0	0	
C12orf63	374467	broad.mit.edu	37	12	97098550	97098550	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
C12orf63	374467	broad.mit.edu	37	12	97102450	97102450	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ANKS1B	56899	broad.mit.edu	37	12	99174974	99174974	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
UHRF1BP1L	23074	broad.mit.edu	37	12	100482808	100482808	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
NR1H4	9971	broad.mit.edu	37	12	100904733	100904733	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
GAS2L3	283431	broad.mit.edu	37	12	101017693	101017693	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ANO4	121601	broad.mit.edu	37	12	101381326	101381326	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
GNPTAB	79158	broad.mit.edu	37	12	102158448	102158448	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
STAB2	55576	broad.mit.edu	37	12	104030964	104030964	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
STAB2	55576	broad.mit.edu	37	12	104123945	104123945	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
STAB2	55576	broad.mit.edu	37	12	104142848	104142848	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ALDH1L2	160428	broad.mit.edu	37	12	105418218	105418218	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
TCP11L2	255394	broad.mit.edu	37	12	106704994	106704994	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
POLR3B	55703	broad.mit.edu	37	12	106763412	106763412	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
PWP1	11137	broad.mit.edu	37	12	108082460	108082460	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
WSCD2	9671	broad.mit.edu	37	12	108589987	108589987	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	1	0	
SART3	9733	broad.mit.edu	37	12	108924060	108924060	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
SART3	9733	broad.mit.edu	37	12	108926095	108926095	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
SSH1	54434	broad.mit.edu	37	12	109194580	109194580	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ACACB	32	broad.mit.edu	37	12	109674991	109674991	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ACACB	32	broad.mit.edu	37	12	109685462	109685462	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
KCTD10	83892	broad.mit.edu	37	12	109894111	109894111	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
C12orf34	84915	broad.mit.edu	37	12	110206189	110206189	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
C12orf34	84915	broad.mit.edu	37	12	110206716	110206716	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TRPV4	59341	broad.mit.edu	37	12	110246174	110246174	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ANAPC7	51434	broad.mit.edu	37	12	110834127	110834127	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CUX2	23316	broad.mit.edu	37	12	111760355	111760355	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ATXN2	6311	broad.mit.edu	37	12	111907920	111907920	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ATXN2	6311	broad.mit.edu	37	12	111951319	111951319	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	1	0	
ACAD10	80724	broad.mit.edu	37	12	112193510	112193510	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
C12orf51	283450	broad.mit.edu	37	12	112688056	112688056	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PTPN11	5781	broad.mit.edu	37	12	112924296	112924296	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
OAS3	4940	broad.mit.edu	37	12	113379472	113379472	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MED13L	23389	broad.mit.edu	37	12	116403940	116403940	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
MED13L	23389	broad.mit.edu	37	12	116421280	116421280	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
MED13L	23389	broad.mit.edu	37	12	116428979	116428979	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
MED13L	23389	broad.mit.edu	37	12	116429691	116429691	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
FBXO21	23014	broad.mit.edu	37	12	117603360	117603360	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
NOS1	4842	broad.mit.edu	37	12	117665266	117665266	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
VSIG10	54621	broad.mit.edu	37	12	118506221	118506221	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
HNF1A	6927	broad.mit.edu	37	12	121438866	121438866	+	Splice_Site	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
KDM2B	84678	broad.mit.edu	37	12	121958857	121958857	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
DIABLO	56616	broad.mit.edu	37	12	122702813	122702813	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
VPS37B	79720	broad.mit.edu	37	12	123351983	123351983	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
EIF2B1	1967	broad.mit.edu	37	12	124106441	124106441	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ATP6V0A2	23545	broad.mit.edu	37	12	124228846	124228846	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
DNAH10	196385	broad.mit.edu	37	12	124274609	124274609	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
DNAH10	196385	broad.mit.edu	37	12	124283835	124283835	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
CCDC92	80212	broad.mit.edu	37	12	124422058	124422058	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
DHX37	57647	broad.mit.edu	37	12	125461903	125461903	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
DHX37	57647	broad.mit.edu	37	12	125473501	125473501	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
TMEM132B	114795	broad.mit.edu	37	12	126138514	126138514	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
TMEM132D	121256	broad.mit.edu	37	12	129566529	129566529	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ULK1	8408	broad.mit.edu	37	12	132400526	132400526	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.003330	0	0	
PUS1	80324	broad.mit.edu	37	12	132426240	132426240	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
DDX51	317781	broad.mit.edu	37	12	132626443	132626443	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
GOLGA3	2802	broad.mit.edu	37	12	133350799	133350799	+	Silent	SNP	C	T	T	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	
GOLGA3	2802	broad.mit.edu	37	12	133365855	133365855	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
GOLGA3	2802	broad.mit.edu	37	12	133374952	133374952	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ZNF268	10795	broad.mit.edu	37	12	133768141	133768141	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
GJB6	10804	broad.mit.edu	37	13	20797216	20797216	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
LATS2	26524	broad.mit.edu	37	13	21557671	21557671	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SGCG	6445	broad.mit.edu	37	13	23853591	23853591	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
SACS	26278	broad.mit.edu	37	13	23906235	23906235	+	Missense_Mutation	SNP	G	A	A	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	0.014410	0	0	
SACS	26278	broad.mit.edu	37	13	23914771	23914771	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
SACS	26278	broad.mit.edu	37	13	23914780	23914780	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SPATA13	221178	broad.mit.edu	37	13	24823711	24823711	+	Translation_Start_Site	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PARP4	143	broad.mit.edu	37	13	25075869	25075869	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ATP12A	479	broad.mit.edu	37	13	25264840	25264840	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
RNF17	56163	broad.mit.edu	37	13	25399866	25399866	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CENPJ	55835	broad.mit.edu	37	13	25480479	25480479	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PABPC3	5042	broad.mit.edu	37	13	25670497	25670497	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.003330	0	0	
FAM123A	219287	broad.mit.edu	37	13	25745036	25745036	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
GPR12	2835	broad.mit.edu	37	13	27333371	27333371	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
LNX2	222484	broad.mit.edu	37	13	28124542	28124542	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
GSX1	219409	broad.mit.edu	37	13	28367838	28367838	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
PAN3	255967	broad.mit.edu	37	13	28862160	28862160	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
USPL1	10208	broad.mit.edu	37	13	31205398	31205398	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
HSPH1	10808	broad.mit.edu	37	13	31717998	31717998	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
BRCA2	675	broad.mit.edu	37	13	32913347	32913347	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
BRCA2	675	broad.mit.edu	37	13	32929041	32929041	+	Missense_Mutation	SNP	G	A	A	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	
NBEA	26960	broad.mit.edu	37	13	35733985	35733985	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
NBEA	26960	broad.mit.edu	37	13	35770145	35770145	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SMAD9	4093	broad.mit.edu	37	13	37453642	37453642	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
EXOSC8	11340	broad.mit.edu	37	13	37577117	37577117	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
FAM48A	55578	broad.mit.edu	37	13	37583829	37583829	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
FREM2	341640	broad.mit.edu	37	13	39265089	39265089	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
FREM2	341640	broad.mit.edu	37	13	39265723	39265723	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
FREM2	341640	broad.mit.edu	37	13	39425215	39425215	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
KBTBD6	89890	broad.mit.edu	37	13	41705362	41705362	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
KBTBD7	84078	broad.mit.edu	37	13	41768040	41768040	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
KIAA0564	23078	broad.mit.edu	37	13	42149902	42149902	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ENOX1	55068	broad.mit.edu	37	13	43872523	43872523	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
C13orf31	144811	broad.mit.edu	37	13	44463069	44463069	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
SPERT	220082	broad.mit.edu	37	13	46276602	46276602	+	Splice_Site	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ZC3H13	23091	broad.mit.edu	37	13	46554101	46554101	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SUCLA2	8803	broad.mit.edu	37	13	48570976	48570976	+	Splice_Site	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
RB1	5925	broad.mit.edu	37	13	48947548	48947548	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
LOC220429	220429	broad.mit.edu	37	13	50466139	50466139	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:50466139A>G	uc001vdk.2	+	1	1595	c.1413A>G	c.(1411-1413)AGA>AGG	p.R471R		NR_003268				Homo sapiens CTAGE family, member 5 pseudogene, mRNA (cDNA clone IMAGE:5270026).												0						CCGCTGAAAGAAACCTCAATG	0.303													13	22					0	0	0.013537	0	0	
INTS6	26512	broad.mit.edu	37	13	52004496	52004496	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
NEK3	4752	broad.mit.edu	37	13	52726815	52726815	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
THSD1P1	374500	broad.mit.edu	37	13	52749871	52749871	+	RNA	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:52749871T>C	uc001vgk.2	-	6		c.857A>G			THSD1P1_uc001vgm.1_RNA|THSD1P1_uc010adx.1_RNA|THSD1P1_uc010ady.1_RNA|THSD1P1_uc001vgl.1_RNA					Homo sapiens cDNA FLJ14630 fis, clone NT2RP2000459.												0						TTTCTGTGGCTTATTTAGCAA	0.358													4	42					0	0	0.009096	0	0	
THSD1P1	374500	broad.mit.edu	37	13	52854026	52854026	+	RNA	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr13:52854026T>C	uc001vgm.1	-	6		c.500A>G								Homo sapiens cDNA FLJ14630 fis, clone NT2RP2000459.												0						GGAAACGACATAGCGACAATA	0.313													4	14					0	0	0.000602	0	0	
SUGT1	10910	broad.mit.edu	37	13	53250418	53250418	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PCDH8	5100	broad.mit.edu	37	13	53421057	53421057	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TDRD3	81550	broad.mit.edu	37	13	61041374	61041374	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
PCDH9	5101	broad.mit.edu	37	13	67800539	67800539	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.006320	0	0	
UCHL3	7347	broad.mit.edu	37	13	76179869	76179869	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MYCBP2	23077	broad.mit.edu	37	13	77652957	77652957	+	Splice_Site	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
MYCBP2	23077	broad.mit.edu	37	13	77780843	77780843	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
SCEL	8796	broad.mit.edu	37	13	78130819	78130819	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SLITRK5	26050	broad.mit.edu	37	13	88327790	88327790	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ABCC4	10257	broad.mit.edu	37	13	95886989	95886989	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MBNL2	10150	broad.mit.edu	37	13	97995277	97995277	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
IPO5	3843	broad.mit.edu	37	13	98658469	98658469	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
GPR183	1880	broad.mit.edu	37	13	99947711	99947711	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
TM9SF2	9375	broad.mit.edu	37	13	100196200	100196200	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PCCA	5095	broad.mit.edu	37	13	100909900	100909900	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
NALCN	259232	broad.mit.edu	37	13	101797171	101797171	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
FGF14	2259	broad.mit.edu	37	13	102375275	102375275	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ERCC5	2073	broad.mit.edu	37	13	103474505	103474505	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.002780	0	0	
RAB20	55647	broad.mit.edu	37	13	111176256	111176256	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
F7	2155	broad.mit.edu	37	13	113770010	113770010	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
F7	2155	broad.mit.edu	37	13	113772918	113772918	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	1	0	
LAMP1	3916	broad.mit.edu	37	13	113965127	113965127	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
POTEG	404785	broad.mit.edu	37	14	19553813	19553813	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.008740	0	0	
OR4K1	79544	broad.mit.edu	37	14	20403942	20403942	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
CCNB1IP1	57820	broad.mit.edu	37	14	20784646	20784646	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
TEP1	7011	broad.mit.edu	37	14	20840980	20840980	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
OSGEP	55644	broad.mit.edu	37	14	20917404	20917404	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
FLJ10357	55701	broad.mit.edu	37	14	21549794	21549794	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TOX4	9878	broad.mit.edu	37	14	21961331	21961331	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	1	0	
OR4E2	26686	broad.mit.edu	37	14	22134094	22134094	+	Silent	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
C14orf93	60686	broad.mit.edu	37	14	23467714	23467714	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PABPN1	8106	broad.mit.edu	37	14	23777114	23777114	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
EFS	10278	broad.mit.edu	37	14	23829242	23829242	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MYH6	4624	broad.mit.edu	37	14	23869602	23869602	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
LRRC16B	90668	broad.mit.edu	37	14	24531766	24531766	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
PCK2	5106	broad.mit.edu	37	14	24569353	24569353	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
DCAF11	80344	broad.mit.edu	37	14	24587991	24587991	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
DCAF11	80344	broad.mit.edu	37	14	24590142	24590142	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
IRF9	10379	broad.mit.edu	37	14	24633834	24633834	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TSSK4	283629	broad.mit.edu	37	14	24675813	24675813	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.006320	0	0	
SDR39U1	56948	broad.mit.edu	37	14	24910013	24910013	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
CTSG	1511	broad.mit.edu	37	14	25044010	25044010	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
STXBP6	29091	broad.mit.edu	37	14	25288385	25288385	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
FOXG1	2290	broad.mit.edu	37	14	29237197	29237197	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
FSCB	84075	broad.mit.edu	37	14	44976167	44976167	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
PRPF39	55015	broad.mit.edu	37	14	45583766	45583766	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
FKBP3	2287	broad.mit.edu	37	14	45587241	45587241	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
FKBP3	2287	broad.mit.edu	37	14	45599093	45599093	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
C14orf106	55320	broad.mit.edu	37	14	45700487	45700487	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
RPL10L	140801	broad.mit.edu	37	14	47120567	47120567	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
RPL10L	140801	broad.mit.edu	37	14	47120671	47120671	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SAV1	60485	broad.mit.edu	37	14	51132299	51132299	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
NIN	51199	broad.mit.edu	37	14	51219431	51219431	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
NIN	51199	broad.mit.edu	37	14	51224055	51224055	+	Silent	SNP	T	A	A	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	0.014410	0	0	
ABHD12B	145447	broad.mit.edu	37	14	51347272	51347272	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
TRIM9	114088	broad.mit.edu	37	14	51561624	51561624	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
FRMD6	122786	broad.mit.edu	37	14	52174925	52174925	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
C14orf166	51637	broad.mit.edu	37	14	52468574	52468574	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
PTGER2	5732	broad.mit.edu	37	14	52781392	52781392	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
GPR137C	283554	broad.mit.edu	37	14	53020116	53020116	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
FERMT2	10979	broad.mit.edu	37	14	53417283	53417283	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
DDHD1	80821	broad.mit.edu	37	14	53529696	53529696	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CDKN3	1033	broad.mit.edu	37	14	54886723	54886723	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
EXOC5	10640	broad.mit.edu	37	14	57676479	57676479	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
DACT1	51339	broad.mit.edu	37	14	59113577	59113577	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
DAAM1	23002	broad.mit.edu	37	14	59791105	59791105	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
DAAM1	23002	broad.mit.edu	37	14	59835393	59835393	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PPM1A	5494	broad.mit.edu	37	14	60756548	60756548	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
SIX6	4990	broad.mit.edu	37	14	60977805	60977805	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PRKCH	5583	broad.mit.edu	37	14	62014542	62014542	+	Nonsense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
SYNE2	23224	broad.mit.edu	37	14	64637149	64637149	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
AKAP5	9495	broad.mit.edu	37	14	64935100	64935100	+	Translation_Start_Site	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
SPTB	6710	broad.mit.edu	37	14	65260187	65260187	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
GPX2	2877	broad.mit.edu	37	14	65406491	65406491	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
VTI1B	10490	broad.mit.edu	37	14	68129195	68129195	+	Missense_Mutation	SNP	G	A	A	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	
ZFYVE26	23503	broad.mit.edu	37	14	68270908	68270908	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ACTN1	87	broad.mit.edu	37	14	69371427	69371427	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SLC39A9	55334	broad.mit.edu	37	14	69925109	69925109	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
SLC8A3	6547	broad.mit.edu	37	14	70634916	70634916	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ADAM21	8747	broad.mit.edu	37	14	70924361	70924361	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ADAM20	8748	broad.mit.edu	37	14	70990174	70990174	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
DCAF4	26094	broad.mit.edu	37	14	73420907	73420907	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
C14orf43	91748	broad.mit.edu	37	14	74196578	74196578	+	Silent	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TTLL5	23093	broad.mit.edu	37	14	76330197	76330197	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.003330	0	0	
C14orf118	55668	broad.mit.edu	37	14	76620992	76620992	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
KIAA1737	85457	broad.mit.edu	37	14	77580348	77580348	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TMED8	283578	broad.mit.edu	37	14	77818084	77818084	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
AHSA1	10598	broad.mit.edu	37	14	77932002	77932002	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.002780	0	0	
ISM2	145501	broad.mit.edu	37	14	77948915	77948915	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
NRXN3	9369	broad.mit.edu	37	14	79117646	79117646	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
PTPN21	11099	broad.mit.edu	37	14	88946101	88946101	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
EML5	161436	broad.mit.edu	37	14	89124530	89124530	+	Splice_Site	SNP	C	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
EML5	161436	broad.mit.edu	37	14	89163261	89163261	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
C14orf102	55051	broad.mit.edu	37	14	90754804	90754804	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
TTC7B	145567	broad.mit.edu	37	14	91077090	91077090	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
C14orf159	80017	broad.mit.edu	37	14	91691156	91691156	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
GPR68	8111	broad.mit.edu	37	14	91701203	91701203	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CCDC88C	440193	broad.mit.edu	37	14	91804474	91804474	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
SMEK1	55671	broad.mit.edu	37	14	91942293	91942293	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
GOLGA5	9950	broad.mit.edu	37	14	93299693	93299693	+	Splice_Site	SNP	G	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
UBR7	55148	broad.mit.edu	37	14	93685689	93685689	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
BTBD7	55727	broad.mit.edu	37	14	93760464	93760464	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SERPINA1	5265	broad.mit.edu	37	14	94844961	94844961	+	Missense_Mutation	SNP	A	G	G	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	
DICER1	23405	broad.mit.edu	37	14	95562592	95562592	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
C14orf49	161176	broad.mit.edu	37	14	95921914	95921914	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ATG2B	55102	broad.mit.edu	37	14	96808017	96808017	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
EVL	51466	broad.mit.edu	37	14	100604082	100604082	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MIR487B	664616	broad.mit.edu	37	14	101512793	101512793	+	RNA	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:101512793T>C	hsa-mir-487b|MI0003530	+			c.2T>C			MIR539_hsa-mir-539|MI0003514_5'Flank|MIR889_hsa-mir-889|MI0005540_5'Flank|MIR544_hsa-mir-544|MI0003515_5'Flank																	0						TGCTAACCTTTGGTACTTGGA	0.448													6	100					0	0	0.003080	0	0	
ZNF839	55778	broad.mit.edu	37	14	102805235	102805235	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
C14orf73	91828	broad.mit.edu	37	14	103574027	103574027	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
KLC1	3831	broad.mit.edu	37	14	104121164	104121164	+	Splice_Site	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
TDRD9	122402	broad.mit.edu	37	14	104460920	104460920	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ADSSL1	122622	broad.mit.edu	37	14	105208219	105208219	+	Silent	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	1	0	
AHNAK2	113146	broad.mit.edu	37	14	105409919	105409919	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
AHNAK2	113146	broad.mit.edu	37	14	105411037	105411037	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
AHNAK2	113146	broad.mit.edu	37	14	105413365	105413365	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
AHNAK2	113146	broad.mit.edu	37	14	105419601	105419601	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
AHNAK2	113146	broad.mit.edu	37	14	105420230	105420230	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CDCA4	55038	broad.mit.edu	37	14	105477960	105477960	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.002780	0	0	
MTA1	9112	broad.mit.edu	37	14	105936442	105936442	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ADAM6	8755	broad.mit.edu	37	14	106610433	106610433	+	RNA	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:106610433T>C	uc010tyt.1	-	1167		c.26398A>G								Parts of antibodies, mostly variable regions.												0						CAGCGTAGTCTGTTGTCCCAC	0.512													44	124					0	0	0.011902	0	0	
ADAM6	8755	broad.mit.edu	37	14	106848886	106848886	+	Splice_Site	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:106848886A>G	uc010tyt.1	-	292		c.11975_splice	c.e292+1							Parts of antibodies, mostly variable regions.												0						AGTACCTAATAAAGGTACTAA	0.502													3	38					0	0	0.004672	0	0	
ADAM6	8755	broad.mit.edu	37	14	107170044	107170044	+	RNA	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr14:107170044C>T	uc010tyt.1	-	39		c.2743G>A								Parts of antibodies, mostly variable regions.												0						AACTTCTGTGCGTAGTTTGCT	0.562													87	280					0	0	0.014410	0	0	
Unknown	0	broad.mit.edu	37	15	20649666	20649666	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:20649666G>A	uc001ytg.2	-	18	2552	c.1843C>T	c.(1843-1845)CCT>TCT	p.P615S	uc010tyx.1_RNA|uc001yth.3_Missense_Mutation_p.P615S|uc010tyy.1_Missense_Mutation_p.P615S					RecName: Full=Putative HERC2-like protein 3;																		CCTGGAGGAGGCCTATCCTGA	0.577													46	91					0	0	0.014410	0	0	
OR4N4	283694	broad.mit.edu	37	15	22383083	22383083	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.002780	1	0	
CYFIP1	23191	broad.mit.edu	37	15	22933861	22933861	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
NIPA1	123606	broad.mit.edu	37	15	23048972	23048972	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
HERC2P2	400322	broad.mit.edu	37	15	23300064	23300064	+	RNA	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:23300064C>T	uc001yvq.2	-	4		c.1441G>A			HERC2P2_uc001yvo.3_RNA|HERC2P2_uc001yvp.3_RNA					Homo sapiens mRNA for KIAA0393 protein, partial cds.												0						TCTGGCAGGGCGGATGTGCTG	0.597													8	14					0	0	0.003080	0	0	
HERC2P2	400322	broad.mit.edu	37	15	23330123	23330123	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:23330123C>T	uc001yvr.2	-	9	1155	c.955G>A	c.(955-957)GAG>AAG	p.E319K	HERC2P2_uc010ayf.1_Intron					RecName: Full=Putative HERC2-like protein 3;												0						GCGCAGACCTCCTTGTAAGAA	0.383													31	78					0	0	0.003755	0	0	
C15orf2	23742	broad.mit.edu	37	15	24921046	24921046	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
C15orf2	23742	broad.mit.edu	37	15	24924398	24924398	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
HERC2	8924	broad.mit.edu	37	15	28366538	28366538	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
HERC2	8924	broad.mit.edu	37	15	28386594	28386594	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
HERC2	8924	broad.mit.edu	37	15	28413568	28413568	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
HERC2	8924	broad.mit.edu	37	15	28447491	28447491	+	Splice_Site	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
HERC2	8924	broad.mit.edu	37	15	28511077	28511077	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
APBA2	321	broad.mit.edu	37	15	29398920	29398920	+	Silent	SNP	G	A	A	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	
MTMR15	22909	broad.mit.edu	37	15	31197974	31197974	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
OTUD7A	161725	broad.mit.edu	37	15	31776478	31776478	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
FMN1	342184	broad.mit.edu	37	15	33261405	33261405	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
RYR3	6263	broad.mit.edu	37	15	33603275	33603275	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
RYR3	6263	broad.mit.edu	37	15	33954568	33954568	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
RYR3	6263	broad.mit.edu	37	15	33990089	33990089	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
RYR3	6263	broad.mit.edu	37	15	34102718	34102718	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
SLC12A6	9990	broad.mit.edu	37	15	34529748	34529748	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ACTC1	70	broad.mit.edu	37	15	35086915	35086915	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
FAM98B	283742	broad.mit.edu	37	15	38756237	38756237	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
THBS1	7057	broad.mit.edu	37	15	39874866	39874866	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
THBS1	7057	broad.mit.edu	37	15	39877747	39877747	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
DNAJC17	55192	broad.mit.edu	37	15	41068826	41068826	+	Splice_Site	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
RPAP1	26015	broad.mit.edu	37	15	41812933	41812933	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
RPAP1	26015	broad.mit.edu	37	15	41817238	41817238	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.003330	0	0	
SPTBN5	51332	broad.mit.edu	37	15	42170739	42170739	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PLA2G4F	255189	broad.mit.edu	37	15	42442320	42442320	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ZFP106	64397	broad.mit.edu	37	15	42743616	42743616	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
LRRC57	255252	broad.mit.edu	37	15	42840347	42840347	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CDAN1	146059	broad.mit.edu	37	15	43022951	43022951	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
EPB42	2038	broad.mit.edu	37	15	43500866	43500866	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
TP53BP1	7158	broad.mit.edu	37	15	43724632	43724632	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
PDIA3	2923	broad.mit.edu	37	15	44057709	44057709	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
SPG11	80208	broad.mit.edu	37	15	44944092	44944092	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
DUOX2	50506	broad.mit.edu	37	15	45404884	45404884	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
SLC28A2	9153	broad.mit.edu	37	15	45564563	45564563	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SLC12A1	6557	broad.mit.edu	37	15	48518768	48518768	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SLC12A1	6557	broad.mit.edu	37	15	48543836	48543836	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
FBN1	2200	broad.mit.edu	37	15	48766477	48766477	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
COPS2	9318	broad.mit.edu	37	15	49447732	49447732	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
HDC	3067	broad.mit.edu	37	15	50540453	50540453	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
USP8	9101	broad.mit.edu	37	15	50785029	50785029	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
TRPM7	54822	broad.mit.edu	37	15	50888464	50888464	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
TRPM7	54822	broad.mit.edu	37	15	50899395	50899395	+	Splice_Site	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
TRPM7	54822	broad.mit.edu	37	15	50931740	50931740	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.003330	0	0	
AP4E1	23431	broad.mit.edu	37	15	51207723	51207723	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
CYP19A1	1588	broad.mit.edu	37	15	51503127	51503127	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
DMXL2	23312	broad.mit.edu	37	15	51830437	51830437	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
DMXL2	23312	broad.mit.edu	37	15	51856325	51856325	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MYO5C	55930	broad.mit.edu	37	15	52543637	52543637	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
MYO5C	55930	broad.mit.edu	37	15	52563983	52563983	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
UNC13C	440279	broad.mit.edu	37	15	54914556	54914556	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
CCPG1	9236	broad.mit.edu	37	15	55664072	55664072	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
NEDD4	4734	broad.mit.edu	37	15	56207696	56207696	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
RFX7	64864	broad.mit.edu	37	15	56436621	56436621	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
ALDH1A2	8854	broad.mit.edu	37	15	58285217	58285217	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
RNF111	54778	broad.mit.edu	37	15	59373220	59373220	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
VPS13C	54832	broad.mit.edu	37	15	62219455	62219455	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
TLN2	83660	broad.mit.edu	37	15	63055814	63055814	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
HERC1	8925	broad.mit.edu	37	15	63956768	63956768	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
DAPK2	23604	broad.mit.edu	37	15	64204153	64204153	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
SNX22	79856	broad.mit.edu	37	15	64446697	64446697	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	1	0	
PLEKHO2	80301	broad.mit.edu	37	15	65157253	65157253	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
PARP16	54956	broad.mit.edu	37	15	65559078	65559078	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
MEGF11	84465	broad.mit.edu	37	15	66416333	66416333	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
MAP2K1	5604	broad.mit.edu	37	15	66774157	66774157	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SMAD3	4088	broad.mit.edu	37	15	67457298	67457298	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
TLE3	7090	broad.mit.edu	37	15	70342461	70342461	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
UACA	55075	broad.mit.edu	37	15	70961720	70961720	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
UACA	55075	broad.mit.edu	37	15	70980154	70980154	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MYO9A	4649	broad.mit.edu	37	15	72172765	72172765	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
MYO9A	4649	broad.mit.edu	37	15	72192132	72192132	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CD276	80381	broad.mit.edu	37	15	73994824	73994824	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
CD276	80381	broad.mit.edu	37	15	73995270	73995270	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
Unknown	0	broad.mit.edu	37	15	74356109	74356109	+	RNA	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:74356109C>T	uc010ulf.1	+	1		c.13C>T			uc002awz.1_5'Flank					DQ577003																		GAGGAGTCGGCAGAGCAGGCA	0.572													5	5					0	0	0.001168	0	0	
CYP11A1	1583	broad.mit.edu	37	15	74635445	74635445	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ARID3B	10620	broad.mit.edu	37	15	74836635	74836635	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CLK3	1198	broad.mit.edu	37	15	74922144	74922144	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
EDC3	80153	broad.mit.edu	37	15	74948135	74948135	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.003330	0	0	
CYP1A2	1544	broad.mit.edu	37	15	75047376	75047376	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
MAN2C1	4123	broad.mit.edu	37	15	75648756	75648756	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
FBXO22	26263	broad.mit.edu	37	15	76222269	76222269	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SCAPER	49855	broad.mit.edu	37	15	77134163	77134163	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
PSTPIP1	9051	broad.mit.edu	37	15	77310814	77310814	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SGK269	79834	broad.mit.edu	37	15	77473490	77473490	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
LINGO1	84894	broad.mit.edu	37	15	77906403	77906403	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CHRNA5	1138	broad.mit.edu	37	15	78873306	78873306	+	Splice_Site	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
CHRNB4	1143	broad.mit.edu	37	15	78923514	78923514	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ADAMTS7	11173	broad.mit.edu	37	15	79058757	79058757	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
KIAA1024	23251	broad.mit.edu	37	15	79748657	79748657	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MESDC2	23184	broad.mit.edu	37	15	81282061	81282061	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
BNC1	646	broad.mit.edu	37	15	83933080	83933080	+	Missense_Mutation	SNP	G	A	A	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	
Unknown	0	broad.mit.edu	37	15	84945201	84945201	+	RNA	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr15:84945201T>A	uc002bke.1	-	1		c.2017A>T								Homo sapiens cDNA FLJ34196 fis, clone FCBBF3019437.																		GGGCCGTGCATCATCTGCTAC	0.597													4	19					0	0	0.009096	0	0	
PDE8A	5151	broad.mit.edu	37	15	85666327	85666327	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
AKAP13	11214	broad.mit.edu	37	15	86278287	86278287	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
RLBP1	6017	broad.mit.edu	37	15	89758315	89758315	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
FANCI	55215	broad.mit.edu	37	15	89828419	89828419	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.003330	0	0	
POLG	5428	broad.mit.edu	37	15	89870444	89870444	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
C15orf42	90381	broad.mit.edu	37	15	90169244	90169244	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.003330	0	0	
FURIN	5045	broad.mit.edu	37	15	91423207	91423207	+	Missense_Mutation	SNP	G	A	A	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	
FURIN	5045	broad.mit.edu	37	15	91424194	91424194	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
UNC45A	55898	broad.mit.edu	37	15	91496765	91496765	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ST8SIA2	8128	broad.mit.edu	37	15	92973323	92973323	+	Nonsense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ST8SIA2	8128	broad.mit.edu	37	15	92987897	92987897	+	Missense_Mutation	SNP	C	T	T	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	
IGF1R	3480	broad.mit.edu	37	15	99467785	99467785	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
IGF1R	3480	broad.mit.edu	37	15	99467821	99467821	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
LRRK1	79705	broad.mit.edu	37	15	101528908	101528908	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CHSY1	22856	broad.mit.edu	37	15	101718849	101718849	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
HBM	3042	broad.mit.edu	37	16	216278	216278	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
MRPL28	10573	broad.mit.edu	37	16	418359	418359	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
SOLH	6650	broad.mit.edu	37	16	601649	601649	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
WDR90	197335	broad.mit.edu	37	16	703790	703790	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
WDR24	84219	broad.mit.edu	37	16	739346	739346	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MSLNL	401827	broad.mit.edu	37	16	830428	830428	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CHTF18	63922	broad.mit.edu	37	16	843186	843186	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
CHTF18	63922	broad.mit.edu	37	16	847005	847005	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
BAIAP3	8938	broad.mit.edu	37	16	1394107	1394107	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
BAIAP3	8938	broad.mit.edu	37	16	1397758	1397758	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
CLCN7	1186	broad.mit.edu	37	16	1510448	1510448	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
EME2	197342	broad.mit.edu	37	16	1825690	1825690	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
SLC9A3R2	9351	broad.mit.edu	37	16	2086386	2086386	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
PKD1	5310	broad.mit.edu	37	16	2150541	2150541	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PKD1	5310	broad.mit.edu	37	16	2161268	2161268	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
TRAF7	84231	broad.mit.edu	37	16	2222242	2222242	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
DNASE1L2	1775	broad.mit.edu	37	16	2287970	2287970	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
DNASE1	1773	broad.mit.edu	37	16	3707217	3707217	+	Silent	SNP	G	A	A	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	
CREBBP	1387	broad.mit.edu	37	16	3820608	3820608	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
TFAP4	7023	broad.mit.edu	37	16	4312644	4312644	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
CORO7	79585	broad.mit.edu	37	16	4411442	4411442	+	Missense_Mutation	SNP	G	A	A	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	
VASN	114990	broad.mit.edu	37	16	4431318	4431318	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
GLYR1	84656	broad.mit.edu	37	16	4882163	4882163	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
GLYR1	84656	broad.mit.edu	37	16	4895126	4895126	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
PPL	5493	broad.mit.edu	37	16	4933690	4933690	+	Missense_Mutation	SNP	G	A	A	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	
PPL	5493	broad.mit.edu	37	16	4940785	4940785	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
CIITA	4261	broad.mit.edu	37	16	10989150	10989150	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CLEC16A	23274	broad.mit.edu	37	16	11214490	11214490	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
ERCC4	2072	broad.mit.edu	37	16	14026125	14026125	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
Unknown	0	broad.mit.edu	37	16	15457701	15457701	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:15457701G>A	uc010bvf.1	-	9	812	c.812C>T	c.(811-813)GCT>GTT	p.A271V						RecName: Full=NPIP-like protein 1;																		AGGGGAGTGAGCAGACACTCG	0.562													5	101					0	0	0.000602	0	0	
NDE1	54820	broad.mit.edu	37	16	15785075	15785075	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
SMG1	23049	broad.mit.edu	37	16	18856807	18856807	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ACSM2A	123876	broad.mit.edu	37	16	20491953	20491953	+	Missense_Mutation	SNP	G	C	C	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	0.014410	0	0	
ACSM2B	348158	broad.mit.edu	37	16	20554526	20554526	+	Missense_Mutation	SNP	C	G	G	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	0.014410	0	0	
DNAH3	55567	broad.mit.edu	37	16	21123335	21123335	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
TMEM159	57146	broad.mit.edu	37	16	21181777	21181777	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ZP2	7783	broad.mit.edu	37	16	21213112	21213112	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
METTL9	51108	broad.mit.edu	37	16	21611071	21611071	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
RRN3P1	730092	broad.mit.edu	37	16	21823606	21823606	+	Splice_Site	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:21823606C>T	uc010vbl.1	-	5	449	c.-48_splice	c.e5+1		uc002diq.3_Intron|RRN3P1_uc002djl.2_Splice_Site	NR_003370				SubName: Full=Putative uncharacterized protein ENSP00000219758;												0						TAATGACTTACGAGGCACAAA	0.373													5	20					0	0	0.001168	0	0	
EEF2K	29904	broad.mit.edu	37	16	22271788	22271788	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
RBBP6	5930	broad.mit.edu	37	16	24580095	24580095	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ZKSCAN2	342357	broad.mit.edu	37	16	25264314	25264314	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
JMJD5	79831	broad.mit.edu	37	16	27226316	27226316	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
GTF3C1	2975	broad.mit.edu	37	16	27473658	27473658	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
GTF3C1	2975	broad.mit.edu	37	16	27475947	27475947	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
GTF3C1	2975	broad.mit.edu	37	16	27499707	27499707	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
KIAA0556	23247	broad.mit.edu	37	16	27629755	27629755	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
SULT1A1	6817	broad.mit.edu	37	16	28619888	28619888	+	Missense_Mutation	SNP	T	C	C	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	
SPNS1	83985	broad.mit.edu	37	16	28995116	28995116	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MAZ	4150	broad.mit.edu	37	16	29819116	29819116	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
SEZ6L2	26470	broad.mit.edu	37	16	29910333	29910333	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
TAOK2	9344	broad.mit.edu	37	16	29999030	29999030	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
HIRIP3	8479	broad.mit.edu	37	16	30004857	30004857	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
INO80E	283899	broad.mit.edu	37	16	30012832	30012832	+	Missense_Mutation	SNP	G	A	A	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	
DOC2A	8448	broad.mit.edu	37	16	30018259	30018259	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PPP4C	5531	broad.mit.edu	37	16	30096053	30096053	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
PPP4C	5531	broad.mit.edu	37	16	30096119	30096119	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF646	9726	broad.mit.edu	37	16	31091576	31091576	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
BCKDK	10295	broad.mit.edu	37	16	31121734	31121734	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
BCKDK	10295	broad.mit.edu	37	16	31122443	31122443	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PYCARD	29108	broad.mit.edu	37	16	31213142	31213142	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.002780	1	0	
ITGAX	3687	broad.mit.edu	37	16	31388516	31388516	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
UBE2MP1	606551	broad.mit.edu	37	16	34404673	34404673	+	RNA	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:34404673C>T	uc002edv.1	-	1		c.90G>A				NR_002837				full-length cDNA clone CS0DH003YB23 of T cells (Jurkat cell line) of Homo sapiens (human).												0						ccgccgcccgcgTCGCCTCCG	0.517													2	0					0	0	0.004672	0	0	
GPT2	84706	broad.mit.edu	37	16	46934625	46934625	+	Missense_Mutation	SNP	T	G	G	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	0.002780	0	0	
ABCC12	94160	broad.mit.edu	37	16	48173146	48173146	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ABCC11	85320	broad.mit.edu	37	16	48250029	48250029	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
NOD2	64127	broad.mit.edu	37	16	50733415	50733415	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
CHD9	80205	broad.mit.edu	37	16	53358048	53358048	+	Silent	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
LPCAT2	54947	broad.mit.edu	37	16	55562369	55562369	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SLC6A2	6530	broad.mit.edu	37	16	55705925	55705925	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
AMFR	267	broad.mit.edu	37	16	56437005	56437005	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
BBS2	583	broad.mit.edu	37	16	56545131	56545131	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CX3CL1	6376	broad.mit.edu	37	16	57416777	57416777	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
COQ9	57017	broad.mit.edu	37	16	57486772	57486772	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
KATNB1	10300	broad.mit.edu	37	16	57778313	57778313	+	Missense_Mutation	SNP	C	T	T	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	0.002450	0	0	
KATNB1	10300	broad.mit.edu	37	16	57785608	57785608	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.006320	0	0	
MMP15	4324	broad.mit.edu	37	16	58072273	58072273	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
RRAD	6236	broad.mit.edu	37	16	66957424	66957424	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CES2	8824	broad.mit.edu	37	16	66974153	66974153	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CBFB	865	broad.mit.edu	37	16	67100670	67100670	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
E2F4	1874	broad.mit.edu	37	16	67229866	67229866	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
PLEKHG4	25894	broad.mit.edu	37	16	67320812	67320812	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ATP6V0D1	9114	broad.mit.edu	37	16	67472482	67472482	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
ATP6V0D1	9114	broad.mit.edu	37	16	67473020	67473020	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
FAM65A	79567	broad.mit.edu	37	16	67576357	67576357	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
TSNAXIP1	55815	broad.mit.edu	37	16	67861174	67861174	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
EDC4	23644	broad.mit.edu	37	16	67914024	67914024	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
PSKH1	5681	broad.mit.edu	37	16	67942930	67942930	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
DUS2L	54920	broad.mit.edu	37	16	68100478	68100478	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
SLC7A6OS	84138	broad.mit.edu	37	16	68337993	68337993	+	Missense_Mutation	SNP	G	A	A	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	0.014410	0	0	
CDH1	999	broad.mit.edu	37	16	68835685	68835685	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
NFAT5	10725	broad.mit.edu	37	16	69687169	69687169	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
NFAT5	10725	broad.mit.edu	37	16	69725814	69725814	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
AARS	16	broad.mit.edu	37	16	70292118	70292118	+	Silent	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
DDX19B	11269	broad.mit.edu	37	16	70359507	70359507	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ST3GAL2	6483	broad.mit.edu	37	16	70422372	70422372	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	1	0	
ZNF23	7571	broad.mit.edu	37	16	71487993	71487993	+	Translation_Start_Site	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TXNL4B	54957	broad.mit.edu	37	16	72122889	72122889	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ZFHX3	463	broad.mit.edu	37	16	72829354	72829354	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
PSMD7	5713	broad.mit.edu	37	16	74330861	74330861	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
LOC283922	283922	broad.mit.edu	37	16	74372644	74372644	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:74372644A>G	uc002fcr.2	-	9	1661	c.315T>C	c.(313-315)CCT>CCC	p.P105P	LOC283922_uc010vms.1_RNA					Homo sapiens cDNA FLJ39449 fis, clone PROST2008360, highly similar to Homo sapiens pyruvate dehydrogenase phosphatase regulatory subunit (PDPR), mRNA.												0						TACCCTTGTCAGGGGGAACAA	0.443													8	25					0	0	0.001855	0	0	
LOC283922	283922	broad.mit.edu	37	16	74372765	74372765	+	Missense_Mutation	SNP	T	C	C	rs2549261	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.chr16:74372765T>C	uc002fcr.2	-	9	1540	c.194A>G	c.(193-195)CAC>CGC	p.H65R	LOC283922_uc010vms.1_RNA					Homo sapiens cDNA FLJ39449 fis, clone PROST2008360, highly similar to Homo sapiens pyruvate dehydrogenase phosphatase regulatory subunit (PDPR), mRNA.												0						GAAGTCCCAGTGGGGAACCTT	0.502													4	58					0	0	0.009096	0	0	
FA2H	79152	broad.mit.edu	37	16	74753037	74753037	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ZNRF1	84937	broad.mit.edu	37	16	75140387	75140387	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
TMEM231	79583	broad.mit.edu	37	16	75579294	75579294	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
CNTNAP4	85445	broad.mit.edu	37	16	76481946	76481946	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CNTNAP4	85445	broad.mit.edu	37	16	76573730	76573730	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
MAF	4094	broad.mit.edu	37	16	79632969	79632969	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MAF	4094	broad.mit.edu	37	16	79633642	79633642	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ATMIN	23300	broad.mit.edu	37	16	81078385	81078385	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
PKD1L2	114780	broad.mit.edu	37	16	81190510	81190510	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
PKD1L2	114780	broad.mit.edu	37	16	81209311	81209311	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
BCMO1	53630	broad.mit.edu	37	16	81293316	81293316	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
TAF1C	9013	broad.mit.edu	37	16	84218572	84218572	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ADAD2	161931	broad.mit.edu	37	16	84224941	84224941	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
KLHL36	79786	broad.mit.edu	37	16	84695605	84695605	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
USP10	9100	broad.mit.edu	37	16	84778357	84778357	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
KIAA0182	23199	broad.mit.edu	37	16	85667621	85667621	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
KIAA0182	23199	broad.mit.edu	37	16	85696670	85696670	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
KIAA0182	23199	broad.mit.edu	37	16	85701751	85701751	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
FOXL1	2300	broad.mit.edu	37	16	86612389	86612389	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
JPH3	57338	broad.mit.edu	37	16	87723329	87723329	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
BANP	54971	broad.mit.edu	37	16	88066729	88066729	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ACSF3	197322	broad.mit.edu	37	16	89167401	89167401	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF778	197320	broad.mit.edu	37	16	89293827	89293827	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ANKRD11	29123	broad.mit.edu	37	16	89347285	89347285	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.008740	0	0	
FANCA	2175	broad.mit.edu	37	16	89809286	89809286	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
GEMIN4	50628	broad.mit.edu	37	17	650110	650110	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
MYO1C	4641	broad.mit.edu	37	17	1386228	1386228	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
SERPINF2	5345	broad.mit.edu	37	17	1650779	1650779	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
METT10D	79066	broad.mit.edu	37	17	2324091	2324091	+	Silent	SNP	G	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
KIAA0664	23277	broad.mit.edu	37	17	2595724	2595724	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
KIAA0664	23277	broad.mit.edu	37	17	2606624	2606624	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
P2RX5	5026	broad.mit.edu	37	17	3594321	3594321	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
C17orf85	55421	broad.mit.edu	37	17	3721814	3721814	+	Silent	SNP	C	T	T	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	0.003080	0	0	
CAMKK1	84254	broad.mit.edu	37	17	3776731	3776731	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ATP2A3	489	broad.mit.edu	37	17	3844275	3844275	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
ANKFY1	51479	broad.mit.edu	37	17	4080582	4080582	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
MYBBP1A	10514	broad.mit.edu	37	17	4448930	4448930	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
CXCL16	58191	broad.mit.edu	37	17	4638556	4638556	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CXCL16	58191	broad.mit.edu	37	17	4638666	4638666	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
PLD2	5338	broad.mit.edu	37	17	4712400	4712400	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
CHRNE	1145	broad.mit.edu	37	17	4802167	4802167	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SPAG7	9552	broad.mit.edu	37	17	4863086	4863086	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
CAMTA2	23125	broad.mit.edu	37	17	4873216	4873216	+	Missense_Mutation	SNP	G	A	A	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	0.014410	0	0	
USP6	9098	broad.mit.edu	37	17	5037186	5037186	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
PITPNM3	83394	broad.mit.edu	37	17	6387608	6387608	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
SLC13A5	284111	broad.mit.edu	37	17	6604366	6604366	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
EIF5A	1984	broad.mit.edu	37	17	7214674	7214674	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.002780	0	0	
KCTD11	147040	broad.mit.edu	37	17	7256323	7256323	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.003330	0	0	
NLGN2	57555	broad.mit.edu	37	17	7318418	7318418	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ZBTB4	57659	broad.mit.edu	37	17	7365936	7365936	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
AMAC1L3	643664	broad.mit.edu	37	17	7385573	7385573	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
TP53	7157	broad.mit.edu	37	17	7577120	7577120	+	Missense_Mutation	SNP	C	T	T	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	
TP53	7157	broad.mit.edu	37	17	7578427	7578427	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CYB5D1	124637	broad.mit.edu	37	17	7761604	7761604	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CNTROB	116840	broad.mit.edu	37	17	7851037	7851037	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ALOXE3	59344	broad.mit.edu	37	17	8013711	8013711	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PER1	5187	broad.mit.edu	37	17	8049980	8049980	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
AURKB	9212	broad.mit.edu	37	17	8108325	8108325	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
C17orf68	80169	broad.mit.edu	37	17	8138088	8138088	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
NTN1	9423	broad.mit.edu	37	17	8926216	8926216	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
WDR16	146845	broad.mit.edu	37	17	9489252	9489252	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
MYH4	4622	broad.mit.edu	37	17	10366715	10366715	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
DNAH9	1770	broad.mit.edu	37	17	11656204	11656204	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ELAC2	60528	broad.mit.edu	37	17	12909071	12909071	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
MEIS3P1	4213	broad.mit.edu	37	17	15690733	15690733	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:15690733C>T	uc002gpc.2	+	1	570	c.549C>T	c.(547-549)CAC>CAT	p.H183H		NR_002211				RecName: Full=Homeobox protein Meis3; AltName: Full=Meis1-related protein 2;												0						TGTTCCAGCACCTCTCACACC	0.572													11	123					0	0	0.001855	0	0	
TRPV2	51393	broad.mit.edu	37	17	16338211	16338211	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.006320	0	0	
ZNF287	57336	broad.mit.edu	37	17	16455634	16455634	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
MPRIP	23164	broad.mit.edu	37	17	17046081	17046081	+	Splice_Site	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
RAI1	10743	broad.mit.edu	37	17	17698099	17698099	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
RAI1	10743	broad.mit.edu	37	17	17700169	17700169	+	Nonsense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
RAI1	10743	broad.mit.edu	37	17	17700292	17700292	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
EPN2	22905	broad.mit.edu	37	17	19186549	19186549	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
MAPK7	5598	broad.mit.edu	37	17	19284780	19284780	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ALDH3A2	224	broad.mit.edu	37	17	19555013	19555013	+	Nonsense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	1	0	
ALDH3A2	224	broad.mit.edu	37	17	19559709	19559709	+	Missense_Mutation	SNP	G	A	A	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	
Unknown	0	broad.mit.edu	37	17	20747161	20747161	+	RNA	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:20747161G>A	uc010crb.1	+	2		c.549G>A								Homo sapiens cDNA clone IMAGE:6269068, partial cds.																		CGAGTGTGCCGCGGTGGTGCT	0.672													3	17					0	0	0.000602	0	0	
CCDC144NL	339184	broad.mit.edu	37	17	20799282	20799282	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
USP22	23326	broad.mit.edu	37	17	20921306	20921306	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
KSR1	8844	broad.mit.edu	37	17	25919448	25919448	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
KIAA0100	9703	broad.mit.edu	37	17	26960389	26960389	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
KIAA0100	9703	broad.mit.edu	37	17	26964956	26964956	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ERAL1	26284	broad.mit.edu	37	17	27185617	27185617	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
PIPOX	51268	broad.mit.edu	37	17	27380576	27380576	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
MYO18A	399687	broad.mit.edu	37	17	27420384	27420384	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
MYO18A	399687	broad.mit.edu	37	17	27437032	27437032	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
MYO18A	399687	broad.mit.edu	37	17	27447649	27447649	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
TAOK1	57551	broad.mit.edu	37	17	27838012	27838012	+	Splice_Site	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
EFCAB5	374786	broad.mit.edu	37	17	28380478	28380478	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
SLC6A4	6532	broad.mit.edu	37	17	28530221	28530221	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
NF1	4763	broad.mit.edu	37	17	29587399	29587399	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
UTP6	55813	broad.mit.edu	37	17	30202317	30202317	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CCT6B	10693	broad.mit.edu	37	17	33266705	33266705	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
SLFN12	55106	broad.mit.edu	37	17	33747357	33747357	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SLFN13	146857	broad.mit.edu	37	17	33770933	33770933	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
AP2B1	163	broad.mit.edu	37	17	33998825	33998825	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	1	0	
RASL10B	91608	broad.mit.edu	37	17	34062412	34062412	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
GAS2L2	246176	broad.mit.edu	37	17	34072896	34072896	+	Silent	SNP	G	T	T	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	0.004990	1	0	
MYO19	80179	broad.mit.edu	37	17	34862384	34862384	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
GGNBP2	79893	broad.mit.edu	37	17	34937854	34937854	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
LHX1	3975	broad.mit.edu	37	17	35300172	35300172	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
LHX1	3975	broad.mit.edu	37	17	35300261	35300261	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
ACACA	31	broad.mit.edu	37	17	35627644	35627644	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
TADA2A	6871	broad.mit.edu	37	17	35830566	35830566	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
GPR179	440435	broad.mit.edu	37	17	36485249	36485249	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
GPR179	440435	broad.mit.edu	37	17	36489875	36489875	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CWC25	54883	broad.mit.edu	37	17	36971185	36971185	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.006320	0	0	
FBXO47	494188	broad.mit.edu	37	17	37101363	37101363	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
Unknown	0	broad.mit.edu	37	17	37187149	37187149	+	RNA	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:37187149T>C	uc002hrd.1	+	1		c.991T>C								Homo sapiens cDNA FLJ43826 fis, clone TESTI4002703.																		GATTCCAGTATCACCCAGTGT	0.498													6	7					0	0	0.001168	0	0	
MED1	5469	broad.mit.edu	37	17	37564724	37564724	+	Silent	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.006320	0	0	
PGAP3	93210	broad.mit.edu	37	17	37829804	37829804	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
MED24	9862	broad.mit.edu	37	17	38191547	38191547	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TNS4	84951	broad.mit.edu	37	17	38638399	38638399	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
KRTAP9-8	83901	broad.mit.edu	37	17	39394370	39394370	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
KRT35	3886	broad.mit.edu	37	17	39636904	39636904	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
KRT36	8689	broad.mit.edu	37	17	39643624	39643624	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
KRT13	3860	broad.mit.edu	37	17	39661316	39661316	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
KRT16	3868	broad.mit.edu	37	17	39767667	39767667	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
KLHL10	317719	broad.mit.edu	37	17	40001736	40001736	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ACLY	47	broad.mit.edu	37	17	40061887	40061887	+	Silent	SNP	A	G	G	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	
ACLY	47	broad.mit.edu	37	17	40068710	40068710	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
KAT2A	2648	broad.mit.edu	37	17	40269927	40269927	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PTRF	284119	broad.mit.edu	37	17	40557220	40557220	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
WNK4	65266	broad.mit.edu	37	17	40940731	40940731	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
WNK4	65266	broad.mit.edu	37	17	40945659	40945659	+	Missense_Mutation	SNP	G	A	A	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	
PSME3	10197	broad.mit.edu	37	17	40989706	40989706	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
IFI35	3430	broad.mit.edu	37	17	41165627	41165627	+	Silent	SNP	C	T	T	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	
SOST	50964	broad.mit.edu	37	17	41832758	41832758	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
UBTF	7343	broad.mit.edu	37	17	42290225	42290225	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
GRN	2896	broad.mit.edu	37	17	42427679	42427679	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	1	0	
EFTUD2	9343	broad.mit.edu	37	17	42958005	42958005	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
C1QL1	10882	broad.mit.edu	37	17	43037611	43037611	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ACBD4	79777	broad.mit.edu	37	17	43220923	43220923	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
PLEKHM1	9842	broad.mit.edu	37	17	43531503	43531503	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
CRHR1	1394	broad.mit.edu	37	17	43861933	43861933	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
MAPT	4137	broad.mit.edu	37	17	44060714	44060714	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
C17orf57	124989	broad.mit.edu	37	17	45471426	45471426	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
TBX21	30009	broad.mit.edu	37	17	45822603	45822603	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
HOXB13	10481	broad.mit.edu	37	17	46805653	46805653	+	Silent	SNP	G	T	T	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	0.014410	1	0	
NGFR	4804	broad.mit.edu	37	17	47589350	47589350	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ITGA3	3675	broad.mit.edu	37	17	48145586	48145586	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
XYLT2	64132	broad.mit.edu	37	17	48434595	48434595	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
EME1	146956	broad.mit.edu	37	17	48453452	48453452	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CACNA1G	8913	broad.mit.edu	37	17	48703770	48703770	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
HLF	3131	broad.mit.edu	37	17	53398143	53398143	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
MMD	23531	broad.mit.edu	37	17	53491524	53491524	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
SCPEP1	59342	broad.mit.edu	37	17	55079432	55079432	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
LPO	4025	broad.mit.edu	37	17	56326949	56326949	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
TUBD1	51174	broad.mit.edu	37	17	57958272	57958272	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
DHX40P1	653645	broad.mit.edu	37	17	58079614	58079614	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr17:58079614T>C	uc002iyf.2	-	4	332	c.97A>G	c.(97-99)ACT>GCT	p.T33A		NR_002924				Homo sapiens DEAH (Asp-Glu-Ala-His) box polypeptide 40 pseudogene, mRNA (cDNA clone IMAGE:5170263).												0						CTCACTGTAGTTAGAGTTCTT	0.308													17	108					0	0	0.004007	0	0	
USP32	84669	broad.mit.edu	37	17	58313509	58313509	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
TBX4	9496	broad.mit.edu	37	17	59560871	59560871	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
INTS2	57508	broad.mit.edu	37	17	59968953	59968953	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
MED13	9969	broad.mit.edu	37	17	60030383	60030383	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
MED13	9969	broad.mit.edu	37	17	60043998	60043998	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
MED13	9969	broad.mit.edu	37	17	60072701	60072701	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
MRC2	9902	broad.mit.edu	37	17	60765963	60765963	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
TANC2	26115	broad.mit.edu	37	17	61466882	61466882	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
GH1	2688	broad.mit.edu	37	17	61995762	61995762	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.006320	0	0	
SCN4A	6329	broad.mit.edu	37	17	62018681	62018681	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
BPTF	2186	broad.mit.edu	37	17	65942395	65942395	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ABCA10	10349	broad.mit.edu	37	17	67161157	67161157	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ABCA5	23461	broad.mit.edu	37	17	67287435	67287435	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
SOX9	6662	broad.mit.edu	37	17	70118922	70118922	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
COG1	9382	broad.mit.edu	37	17	71196745	71196745	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
SDK2	54549	broad.mit.edu	37	17	71384174	71384174	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
DNAI2	64446	broad.mit.edu	37	17	72278019	72278019	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
DNAI2	64446	broad.mit.edu	37	17	72301516	72301516	+	Silent	SNP	G	A	A	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	0.002780	0	0	
GRIN2C	2905	broad.mit.edu	37	17	72838813	72838813	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
LLGL2	3993	broad.mit.edu	37	17	73565397	73565397	+	Silent	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
RECQL5	9400	broad.mit.edu	37	17	73625122	73625122	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
FBF1	85302	broad.mit.edu	37	17	73910955	73910955	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
EVPL	2125	broad.mit.edu	37	17	74018092	74018092	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
CYGB	114757	broad.mit.edu	37	17	74527136	74527136	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
SEC14L1	6397	broad.mit.edu	37	17	75202391	75202391	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.002780	0	0	
SEC14L1	6397	broad.mit.edu	37	17	75202481	75202481	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SEPT9	10801	broad.mit.edu	37	17	75493432	75493432	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CYTH1	9267	broad.mit.edu	37	17	76696475	76696475	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CYTH1	9267	broad.mit.edu	37	17	76705763	76705763	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CANT1	124583	broad.mit.edu	37	17	76989793	76989793	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CCDC40	55036	broad.mit.edu	37	17	78055787	78055787	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
SLC26A11	284129	broad.mit.edu	37	17	78222037	78222037	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
RNF213	57674	broad.mit.edu	37	17	78317675	78317675	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
RNF213	57674	broad.mit.edu	37	17	78338303	78338303	+	Missense_Mutation	SNP	G	A	A	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	
RNF213	57674	broad.mit.edu	37	17	78346449	78346449	+	Silent	SNP	G	A	A	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	0.003330	0	0	
RNF213	57674	broad.mit.edu	37	17	78360232	78360232	+	Splice_Site	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
SLC38A10	124565	broad.mit.edu	37	17	79220314	79220314	+	Missense_Mutation	SNP	C	T	T	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	0.002450	0	0	
C17orf90	339229	broad.mit.edu	37	17	79632587	79632587	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
FASN	2194	broad.mit.edu	37	17	80049217	80049217	+	Missense_Mutation	SNP	G	A	A	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	0.003080	0	0	
CCDC57	284001	broad.mit.edu	37	17	80059697	80059697	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.003330	0	0	
RAB40B	10966	broad.mit.edu	37	17	80615771	80615771	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
THOC1	9984	broad.mit.edu	37	18	216529	216529	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
CLUL1	27098	broad.mit.edu	37	18	627251	627251	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	1	0	
LPIN2	9663	broad.mit.edu	37	18	2920878	2920878	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
L3MBTL4	91133	broad.mit.edu	37	18	6239801	6239801	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
ARHGAP28	79822	broad.mit.edu	37	18	6873731	6873731	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
PTPRM	5797	broad.mit.edu	37	18	8244194	8244194	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
RAB12	201475	broad.mit.edu	37	18	8609919	8609919	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
KIAA0802	23255	broad.mit.edu	37	18	8784835	8784835	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TXNDC2	84203	broad.mit.edu	37	18	9887067	9887067	+	Silent	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	1	0	
GNAL	2774	broad.mit.edu	37	18	11752365	11752365	+	Translation_Start_Site	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MC2R	4158	broad.mit.edu	37	18	13884985	13884985	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ROCK1	6093	broad.mit.edu	37	18	18588031	18588031	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
LAMA3	3909	broad.mit.edu	37	18	21441613	21441613	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF521	25925	broad.mit.edu	37	18	22805224	22805224	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
TAF4B	6875	broad.mit.edu	37	18	23866258	23866258	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.002780	0	0	
CDH2	1000	broad.mit.edu	37	18	25593645	25593645	+	Splice_Site	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
MCART2	147407	broad.mit.edu	37	18	29340013	29340013	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
KIAA1012	22878	broad.mit.edu	37	18	29429584	29429584	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
KLHL14	57565	broad.mit.edu	37	18	30260415	30260415	+	Silent	SNP	C	T	T	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	0.014410	0	0	
MOCOS	55034	broad.mit.edu	37	18	33836952	33836952	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
MOCOS	55034	broad.mit.edu	37	18	33848583	33848583	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
KIAA1328	57536	broad.mit.edu	37	18	34753044	34753044	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
CELF4	56853	broad.mit.edu	37	18	34854302	34854302	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
KIAA0427	9811	broad.mit.edu	37	18	46385820	46385820	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CXXC1	30827	broad.mit.edu	37	18	47812265	47812265	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
DCC	1630	broad.mit.edu	37	18	50985668	50985668	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
DCC	1630	broad.mit.edu	37	18	50985691	50985691	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
DCC	1630	broad.mit.edu	37	18	51025784	51025784	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ONECUT2	9480	broad.mit.edu	37	18	55103632	55103632	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
ATP8B1	5205	broad.mit.edu	37	18	55322536	55322536	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ATP8B1	5205	broad.mit.edu	37	18	55355665	55355665	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ZNF532	55205	broad.mit.edu	37	18	56651514	56651514	+	Missense_Mutation	SNP	G	T	T	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	
RAX	30062	broad.mit.edu	37	18	56939715	56939715	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
LMAN1	3998	broad.mit.edu	37	18	56998753	56998753	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
MC4R	4160	broad.mit.edu	37	18	58038674	58038674	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
TNFRSF11A	8792	broad.mit.edu	37	18	60017167	60017167	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
PHLPP1	23239	broad.mit.edu	37	18	60630645	60630645	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
BCL2	596	broad.mit.edu	37	18	60985517	60985517	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
VPS4B	9525	broad.mit.edu	37	18	61067315	61067315	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.008740	0	0	
SERPINB5	5268	broad.mit.edu	37	18	61166407	61166407	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.008740	0	0	
SERPINB4	6318	broad.mit.edu	37	18	61306899	61306899	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SERPINB7	8710	broad.mit.edu	37	18	61471659	61471659	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
DSEL	92126	broad.mit.edu	37	18	65178220	65178220	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
NETO1	81832	broad.mit.edu	37	18	70534507	70534507	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF407	55628	broad.mit.edu	37	18	72347183	72347183	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.006320	1	0	
TSHZ1	10194	broad.mit.edu	37	18	72998600	72998600	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
ZNF516	9658	broad.mit.edu	37	18	74154821	74154821	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF236	7776	broad.mit.edu	37	18	74592191	74592191	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF236	7776	broad.mit.edu	37	18	74631811	74631811	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ADNP2	22850	broad.mit.edu	37	18	77894254	77894254	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ADNP2	22850	broad.mit.edu	37	18	77895696	77895696	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
THEG	51298	broad.mit.edu	37	19	375883	375883	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PALM	5064	broad.mit.edu	37	19	736048	736048	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
AZU1	566	broad.mit.edu	37	19	828274	828274	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ABCA7	10347	broad.mit.edu	37	19	1055276	1055276	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ABCA7	10347	broad.mit.edu	37	19	1057392	1057392	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.003330	0	0	
HMHA1	23526	broad.mit.edu	37	19	1080015	1080015	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
DAZAP1	26528	broad.mit.edu	37	19	1434841	1434841	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ADAMTSL5	339366	broad.mit.edu	37	19	1506599	1506599	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
MBD3	53615	broad.mit.edu	37	19	1585130	1585130	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TCF3	6929	broad.mit.edu	37	19	1615419	1615419	+	Missense_Mutation	SNP	G	A	A	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	0.014410	0	0	
ADAT3	113179	broad.mit.edu	37	19	1913109	1913109	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
DOT1L	84444	broad.mit.edu	37	19	2226522	2226522	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
TMPRSS9	360200	broad.mit.edu	37	19	2408461	2408461	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
LMNB2	84823	broad.mit.edu	37	19	2434861	2434861	+	Silent	SNP	C	T	T	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	
GNA11	2767	broad.mit.edu	37	19	3121149	3121149	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
C19orf28	126321	broad.mit.edu	37	19	3551146	3551146	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
C19orf29	58509	broad.mit.edu	37	19	3613205	3613205	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
PIP5K1C	23396	broad.mit.edu	37	19	3641737	3641737	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PIAS4	51588	broad.mit.edu	37	19	4013158	4013158	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
CREB3L3	84699	broad.mit.edu	37	19	4171861	4171861	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SH3GL1	6455	broad.mit.edu	37	19	4361738	4361738	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
CHAF1A	10036	broad.mit.edu	37	19	4433467	4433467	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
LRG1	116844	broad.mit.edu	37	19	4538098	4538098	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
DPP9	91039	broad.mit.edu	37	19	4683528	4683528	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
FEM1A	55527	broad.mit.edu	37	19	4792751	4792751	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
TICAM1	148022	broad.mit.edu	37	19	4817394	4817394	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
LONP1	9361	broad.mit.edu	37	19	5700824	5700824	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
TMEM146	257062	broad.mit.edu	37	19	5739377	5739377	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
PRR22	163154	broad.mit.edu	37	19	5784045	5784045	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
C3	718	broad.mit.edu	37	19	6707497	6707497	+	Missense_Mutation	SNP	G	A	A	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	
ZNF557	79230	broad.mit.edu	37	19	7075715	7075715	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MCOLN1	57192	broad.mit.edu	37	19	7589892	7589892	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
KIAA1543	57662	broad.mit.edu	37	19	7670197	7670197	+	Silent	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
XAB2	56949	broad.mit.edu	37	19	7684859	7684859	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ELAVL1	1994	broad.mit.edu	37	19	8028431	8028431	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
FBN3	84467	broad.mit.edu	37	19	8137979	8137979	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
FBN3	84467	broad.mit.edu	37	19	8196449	8196449	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ANGPTL4	51129	broad.mit.edu	37	19	8436327	8436327	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PRAM1	84106	broad.mit.edu	37	19	8563852	8563852	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ADAMTS10	81794	broad.mit.edu	37	19	8668717	8668717	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MUC16	94025	broad.mit.edu	37	19	9048747	9048747	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
MUC16	94025	broad.mit.edu	37	19	9056901	9056901	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
MUC16	94025	broad.mit.edu	37	19	9063940	9063940	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MUC16	94025	broad.mit.edu	37	19	9066859	9066859	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
MUC16	94025	broad.mit.edu	37	19	9075275	9075275	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
MUC16	94025	broad.mit.edu	37	19	9084585	9084585	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF317	57693	broad.mit.edu	37	19	9270967	9270967	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
ZNF559	84527	broad.mit.edu	37	19	9452554	9452554	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
KRI1	65095	broad.mit.edu	37	19	10670348	10670348	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
KRI1	65095	broad.mit.edu	37	19	10670512	10670512	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ILF3	3609	broad.mit.edu	37	19	10791697	10791697	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
KANK2	25959	broad.mit.edu	37	19	11304581	11304581	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
DOCK6	57572	broad.mit.edu	37	19	11319449	11319449	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
DOCK6	57572	broad.mit.edu	37	19	11325304	11325304	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
DOCK6	57572	broad.mit.edu	37	19	11333573	11333573	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
DOCK6	57572	broad.mit.edu	37	19	11361698	11361698	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CCDC151	115948	broad.mit.edu	37	19	11531591	11531591	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CNN1	1264	broad.mit.edu	37	19	11651959	11651959	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF441	126068	broad.mit.edu	37	19	11891889	11891889	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
ZNF439	90594	broad.mit.edu	37	19	11979050	11979050	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF700	90592	broad.mit.edu	37	19	12060478	12060478	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF799	90576	broad.mit.edu	37	19	12502150	12502150	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF709	163051	broad.mit.edu	37	19	12576123	12576123	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
CALR	811	broad.mit.edu	37	19	13054412	13054412	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
RAD23A	5886	broad.mit.edu	37	19	13058813	13058813	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
TRMT1	55621	broad.mit.edu	37	19	13226508	13226508	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
MRI1	84245	broad.mit.edu	37	19	13879776	13879776	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
RFX1	5989	broad.mit.edu	37	19	14077502	14077502	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
RFX1	5989	broad.mit.edu	37	19	14094383	14094383	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
IL27RA	9466	broad.mit.edu	37	19	14150709	14150709	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
LPHN1	22859	broad.mit.edu	37	19	14271413	14271413	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
DDX39	10212	broad.mit.edu	37	19	14520628	14520628	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
OR7A5	26659	broad.mit.edu	37	19	14938274	14938274	+	Silent	SNP	A	G	G	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	
OR7A17	26333	broad.mit.edu	37	19	14991549	14991549	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
NOTCH3	4854	broad.mit.edu	37	19	15296182	15296182	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
BRD4	23476	broad.mit.edu	37	19	15367880	15367880	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
OR10H2	26538	broad.mit.edu	37	19	15838975	15838975	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
CYP4F11	57834	broad.mit.edu	37	19	16024702	16024702	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
EPS15L1	58513	broad.mit.edu	37	19	16515477	16515477	+	Silent	SNP	G	A	A	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	
TMEM38A	79041	broad.mit.edu	37	19	16793252	16793252	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ANO8	57719	broad.mit.edu	37	19	17439208	17439208	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
UNC13A	23025	broad.mit.edu	37	19	17752329	17752329	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
KIAA1683	80726	broad.mit.edu	37	19	18376471	18376471	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CRLF1	9244	broad.mit.edu	37	19	18705140	18705140	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
TMEM161A	54929	broad.mit.edu	37	19	19231660	19231660	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CILP2	148113	broad.mit.edu	37	19	19654938	19654938	+	Silent	SNP	C	T	T	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	0.002450	0	0	
GMIP	51291	broad.mit.edu	37	19	19745393	19745393	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF208	7757	broad.mit.edu	37	19	22155254	22155254	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF257	113835	broad.mit.edu	37	19	22255700	22255700	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF254	9534	broad.mit.edu	37	19	24309406	24309406	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
PLEKHF1	79156	broad.mit.edu	37	19	30164923	30164923	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF536	9745	broad.mit.edu	37	19	30934517	30934517	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ZNF536	9745	broad.mit.edu	37	19	31039479	31039479	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF536	9745	broad.mit.edu	37	19	31040415	31040415	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF507	22847	broad.mit.edu	37	19	32845706	32845706	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
DPY19L3	147991	broad.mit.edu	37	19	32930061	32930061	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ANKRD27	84079	broad.mit.edu	37	19	33113449	33113449	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
RHPN2	85415	broad.mit.edu	37	19	33499019	33499019	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
KIAA0355	9710	broad.mit.edu	37	19	34843573	34843573	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
UBA2	10054	broad.mit.edu	37	19	34945231	34945231	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
SCGBL	284402	broad.mit.edu	37	19	35085248	35085248	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
LGI4	163175	broad.mit.edu	37	19	35617396	35617396	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
GAPDHS	26330	broad.mit.edu	37	19	36027760	36027760	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
ATP4A	495	broad.mit.edu	37	19	36046378	36046378	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
UPK1A	11045	broad.mit.edu	37	19	36157789	36157789	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MLL4	9757	broad.mit.edu	37	19	36211882	36211882	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MLL4	9757	broad.mit.edu	37	19	36221488	36221488	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
KIRREL2	84063	broad.mit.edu	37	19	36347987	36347987	+	Translation_Start_Site	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
APLP1	333	broad.mit.edu	37	19	36363449	36363449	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
APLP1	333	broad.mit.edu	37	19	36369508	36369508	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.002780	0	0	
CAPNS1	826	broad.mit.edu	37	19	36637136	36637136	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ZNF565	147929	broad.mit.edu	37	19	36674430	36674430	+	Silent	SNP	G	A	A	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	
ZNF790	388536	broad.mit.edu	37	19	37309566	37309566	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF829	374899	broad.mit.edu	37	19	37383068	37383068	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF570	148268	broad.mit.edu	37	19	37975066	37975066	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF540	163255	broad.mit.edu	37	19	38103201	38103201	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF781	163115	broad.mit.edu	37	19	38160950	38160950	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SIPA1L3	23094	broad.mit.edu	37	19	38621343	38621343	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
DPF1	8193	broad.mit.edu	37	19	38713211	38713211	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
DPF1	8193	broad.mit.edu	37	19	38713250	38713250	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
RYR1	6261	broad.mit.edu	37	19	38934419	38934419	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
RYR1	6261	broad.mit.edu	37	19	38948774	38948774	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.008740	0	0	
RYR1	6261	broad.mit.edu	37	19	39002913	39002913	+	Missense_Mutation	SNP	G	A	A	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	
RYR1	6261	broad.mit.edu	37	19	39051818	39051818	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.006230	0	0	
ACTN4	81	broad.mit.edu	37	19	39214810	39214810	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CAPN12	147968	broad.mit.edu	37	19	39232471	39232471	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
HNRNPL	3191	broad.mit.edu	37	19	39336661	39336661	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
PAK4	10298	broad.mit.edu	37	19	39669106	39669106	+	Nonsense_Mutation	SNP	C	T	T	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	0.003080	0	0	
PAK4	10298	broad.mit.edu	37	19	39669137	39669137	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
PAF1	54623	broad.mit.edu	37	19	39876979	39876979	+	Silent	SNP	G	A	A	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	0.014410	0	0	
FBL	2091	broad.mit.edu	37	19	40328367	40328367	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ZNF780B	163131	broad.mit.edu	37	19	40540940	40540940	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
MAP3K10	4294	broad.mit.edu	37	19	40698374	40698374	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MAP3K10	4294	broad.mit.edu	37	19	40712031	40712031	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PRX	57716	broad.mit.edu	37	19	40899994	40899994	+	Missense_Mutation	SNP	C	T	T	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	
SPTBN4	57731	broad.mit.edu	37	19	41012169	41012169	+	Silent	SNP	G	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
SHKBP1	92799	broad.mit.edu	37	19	41086783	41086783	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SHKBP1	92799	broad.mit.edu	37	19	41089337	41089337	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ADCK4	79934	broad.mit.edu	37	19	41208524	41208524	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ITPKC	80271	broad.mit.edu	37	19	41243632	41243632	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CYP2B7P1	1556	broad.mit.edu	37	19	41430241	41430241	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:41430241C>T	uc010ehg.1	+	1	72	c.64C>T	c.(64-66)CGT>TGT	p.R22C	CYP2A7_uc002opo.2_Intron|CYP2B7P1_uc010ehh.1_Missense_Mutation_p.R22C|CYP2B7P1_uc002opq.2_RNA					SubName: Full=Cytochrome P450 2B7 short isoform; SubName: Full=CYP2B protein;											ovary(1)|skin(1)	2						CCTGGTTCAGCGTCACCCTAA	0.602													33	88					0	0	0.010818	0	0	
AXL	558	broad.mit.edu	37	19	41762394	41762394	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
B9D2	80776	broad.mit.edu	37	19	41860690	41860690	+	Missense_Mutation	SNP	C	T	T	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	
BCKDHA	593	broad.mit.edu	37	19	41884359	41884359	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ARHGEF1	9138	broad.mit.edu	37	19	42406498	42406498	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ATP1A3	478	broad.mit.edu	37	19	42474440	42474440	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
POU2F2	5452	broad.mit.edu	37	19	42599726	42599726	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
GSK3A	2931	broad.mit.edu	37	19	42736740	42736740	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MEGF8	1954	broad.mit.edu	37	19	42873096	42873096	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
MEGF8	1954	broad.mit.edu	37	19	42879938	42879938	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PSG1	5669	broad.mit.edu	37	19	43382329	43382329	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF575	284346	broad.mit.edu	37	19	44039617	44039617	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
KCNN4	3783	broad.mit.edu	37	19	44278355	44278355	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF404	342908	broad.mit.edu	37	19	44378091	44378091	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF221	7638	broad.mit.edu	37	19	44469186	44469186	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ZNF234	10780	broad.mit.edu	37	19	44661316	44661316	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF226	7769	broad.mit.edu	37	19	44681437	44681437	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF235	9310	broad.mit.edu	37	19	44792006	44792006	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
CBLC	23624	broad.mit.edu	37	19	45296787	45296787	+	Silent	SNP	C	T	T	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	
NKPD1	284353	broad.mit.edu	37	19	45655873	45655873	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
FOSB	2354	broad.mit.edu	37	19	45975912	45975912	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
FOSB	2354	broad.mit.edu	37	19	45976210	45976210	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
GPR4	2828	broad.mit.edu	37	19	46094726	46094726	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
FOXA3	3171	broad.mit.edu	37	19	46375539	46375539	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CCDC8	83987	broad.mit.edu	37	19	46915764	46915764	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
GRLF1	2909	broad.mit.edu	37	19	47425365	47425365	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:47425365C>T	uc010ekv.2	+	1	3433	c.3433C>T	c.(3433-3435)CGA>TGA	p.R1145*		NM_004491	NP_004482	Q9NRY4	RHG35_HUMAN	glucocorticoid receptor DNA binding factor 1	1145					axon guidance|negative regulation of transcription, DNA-dependent|small GTPase mediated signal transduction|transcription, DNA-dependent	cytosol	DNA binding|Rho GTPase activator activity|transcription corepressor activity			central_nervous_system(1)	1		all_cancers(25;1.51e-09)|all_epithelial(76;1.87e-07)|all_lung(116;7.86e-06)|Lung NSC(112;2.31e-05)|Ovarian(192;0.0129)|all_neural(266;0.026)|Breast(70;0.077)		all cancers(93;2.03e-05)|OV - Ovarian serous cystadenocarcinoma(262;2.57e-05)|Epithelial(262;0.00135)|GBM - Glioblastoma multiforme(486;0.0289)		CTCTCTAGAGCGAGGGCGCAA	0.562													11	27					0	0	0.013537	0	0	
ZC3H4	23211	broad.mit.edu	37	19	47570574	47570574	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CCDC9	26093	broad.mit.edu	37	19	47773861	47773861	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SLC8A2	6543	broad.mit.edu	37	19	47969099	47969099	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TMEM143	55260	broad.mit.edu	37	19	48863431	48863431	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
KCNJ14	3770	broad.mit.edu	37	19	48965192	48965192	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
KCNJ14	3770	broad.mit.edu	37	19	48968005	48968005	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TULP2	7288	broad.mit.edu	37	19	49400605	49400605	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CGB8	94115	broad.mit.edu	37	19	49551986	49551986	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CD37	951	broad.mit.edu	37	19	49842653	49842653	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SLC17A7	57030	broad.mit.edu	37	19	49934663	49934663	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
TBC1D17	79735	broad.mit.edu	37	19	50386247	50386247	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.003330	0	0	
ATF5	22809	broad.mit.edu	37	19	50436306	50436306	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
C19orf41	126123	broad.mit.edu	37	19	50661547	50661547	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
MYH14	79784	broad.mit.edu	37	19	50784930	50784930	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
POLD1	5424	broad.mit.edu	37	19	50917010	50917010	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SHANK1	50944	broad.mit.edu	37	19	51169816	51169816	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
SHANK1	50944	broad.mit.edu	37	19	51171765	51171765	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
SHANK1	50944	broad.mit.edu	37	19	51201124	51201124	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CTU1	90353	broad.mit.edu	37	19	51602381	51602381	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
HAS1	3036	broad.mit.edu	37	19	52216817	52216817	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF577	84765	broad.mit.edu	37	19	52381737	52381737	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF616	90317	broad.mit.edu	37	19	52619010	52619010	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF480	147657	broad.mit.edu	37	19	52826015	52826015	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF808	388558	broad.mit.edu	37	19	53057276	53057276	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF600	162966	broad.mit.edu	37	19	53270656	53270656	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ZNF320	162967	broad.mit.edu	37	19	53384245	53384245	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF845	91664	broad.mit.edu	37	19	53854916	53854916	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF761	388561	broad.mit.edu	37	19	53957988	53957988	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF761	388561	broad.mit.edu	37	19	53959361	53959361	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.002780	0	0	
MIR519A1	574496	broad.mit.edu	37	19	54255723	54255723	+	RNA	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:54255723G>T	hsa-mir-519a-1|MI0003178	+			c.73G>T			MIR527_hsa-mir-527|MI0003179_5'Flank																	0						CTTTTAGAGTGTTACTGTTTG	0.423													10	115					0.00829132	0.00841852	0.008291	1	0	
PRKCG	5582	broad.mit.edu	37	19	54401306	54401306	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
LILRB2	10288	broad.mit.edu	37	19	54783435	54783435	+	Silent	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
LENG8	114823	broad.mit.edu	37	19	54966602	54966602	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CDC42EP5	148170	broad.mit.edu	37	19	54976609	54976609	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:54976609G>A	uc002qfz.1	-	3	476	c.123C>T	c.(121-123)GAC>GAT	p.D41D	LENG9_uc010yez.1_5'Flank	NM_145057	NP_659494	Q6NZY7	BORG3_HUMAN	CDC42 effector protein 5	41					positive regulation of actin filament polymerization|positive regulation of pseudopodium assembly|regulation of cell shape	cytoplasm|cytoskeleton|endomembrane system|membrane	GTP-Rho binding				0	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.138)		CCCCGAAGGCGTCGCCGCCGC	0.498													5	5					0	0	0.001168	0	0	
LILRA2	11027	broad.mit.edu	37	19	55085865	55085865	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
HSPBP1	23640	broad.mit.edu	37	19	55773978	55773978	+	Nonstop_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
TMEM150B	284417	broad.mit.edu	37	19	55832401	55832401	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF579	163033	broad.mit.edu	37	19	56089484	56089484	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
NLRP9	338321	broad.mit.edu	37	19	56223792	56223792	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF835	90485	broad.mit.edu	37	19	57175344	57175344	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF835	90485	broad.mit.edu	37	19	57175421	57175421	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF460	10794	broad.mit.edu	37	19	57802980	57802980	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF17	7565	broad.mit.edu	37	19	57929356	57929356	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF773	374928	broad.mit.edu	37	19	58017804	58017804	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF587	84914	broad.mit.edu	37	19	58371166	58371166	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF814	730051	broad.mit.edu	37	19	58384561	58384561	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
ZNF606	80095	broad.mit.edu	37	19	58490719	58490719	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
ZNF135	7694	broad.mit.edu	37	19	58578892	58578892	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF584	201514	broad.mit.edu	37	19	58926931	58926931	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TPO	7173	broad.mit.edu	37	2	1480977	1480977	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
MYT1L	23040	broad.mit.edu	37	2	1890312	1890312	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
MYT1L	23040	broad.mit.edu	37	2	1926086	1926086	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.006230	0	0	
TSSC1	7260	broad.mit.edu	37	2	3197842	3197842	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SOX11	6664	broad.mit.edu	37	2	5833227	5833227	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
KIDINS220	57498	broad.mit.edu	37	2	8926386	8926386	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	1	0	
IAH1	285148	broad.mit.edu	37	2	9618462	9618462	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ADAM17	6868	broad.mit.edu	37	2	9683306	9683306	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
HPCAL1	3241	broad.mit.edu	37	2	10560015	10560015	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
HPCAL1	3241	broad.mit.edu	37	2	10560033	10560033	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PQLC3	130814	broad.mit.edu	37	2	11317897	11317897	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
NBAS	51594	broad.mit.edu	37	2	15468396	15468396	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
DDX1	1653	broad.mit.edu	37	2	15743351	15743351	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
FAM49A	81553	broad.mit.edu	37	2	16742786	16742786	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
PUM2	23369	broad.mit.edu	37	2	20453706	20453706	+	Nonsense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	1	0	
HS1BP3	64342	broad.mit.edu	37	2	20845123	20845123	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
NCOA1	8648	broad.mit.edu	37	2	24929467	24929467	+	Missense_Mutation	SNP	C	A	A	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	
KIF3C	3797	broad.mit.edu	37	2	26203675	26203675	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
AGBL5	60509	broad.mit.edu	37	2	27290410	27290410	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
SLC5A6	8884	broad.mit.edu	37	2	27426119	27426119	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SLC30A3	7781	broad.mit.edu	37	2	27479689	27479689	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SNX17	9784	broad.mit.edu	37	2	27599213	27599213	+	Missense_Mutation	SNP	C	T	T	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	
FNDC4	64838	broad.mit.edu	37	2	27715566	27715566	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
RBKS	64080	broad.mit.edu	37	2	28050434	28050434	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PLB1	151056	broad.mit.edu	37	2	28801025	28801025	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
C2orf71	388939	broad.mit.edu	37	2	29296327	29296327	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
LCLAT1	253558	broad.mit.edu	37	2	30748623	30748623	+	Splice_Site	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
XDH	7498	broad.mit.edu	37	2	31588901	31588901	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
NLRC4	58484	broad.mit.edu	37	2	32449783	32449783	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
LTBP1	4052	broad.mit.edu	37	2	33623566	33623566	+	Missense_Mutation	SNP	C	T	T	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	0.003080	0	0	
EIF2AK2	5610	broad.mit.edu	37	2	37347136	37347136	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
SLC8A1	6546	broad.mit.edu	37	2	40656492	40656492	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
THADA	63892	broad.mit.edu	37	2	43808916	43808916	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
THADA	63892	broad.mit.edu	37	2	43813540	43813540	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PPM1B	5495	broad.mit.edu	37	2	44428693	44428693	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
PPM1B	5495	broad.mit.edu	37	2	44428717	44428717	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
PPM1B	5495	broad.mit.edu	37	2	44436356	44436356	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.003330	0	0	
SIX3	6496	broad.mit.edu	37	2	45169356	45169356	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
PRKCE	5581	broad.mit.edu	37	2	46378314	46378314	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
EPAS1	2034	broad.mit.edu	37	2	46574037	46574037	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
MSH6	2956	broad.mit.edu	37	2	48026471	48026471	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
MSH6	2956	broad.mit.edu	37	2	48026560	48026560	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
STON1-GTF2A1L	286749	broad.mit.edu	37	2	48809378	48809378	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
FSHR	2492	broad.mit.edu	37	2	49190590	49190590	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
PSME4	23198	broad.mit.edu	37	2	54115035	54115035	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ACYP2	98	broad.mit.edu	37	2	54362601	54362601	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
MTIF2	4528	broad.mit.edu	37	2	55464533	55464533	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CCDC88A	55704	broad.mit.edu	37	2	55535973	55535973	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
CCDC88A	55704	broad.mit.edu	37	2	55589575	55589575	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
BCL11A	53335	broad.mit.edu	37	2	60688807	60688807	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.006230	0	0	
PAPOLG	64895	broad.mit.edu	37	2	61020810	61020810	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
USP34	9736	broad.mit.edu	37	2	61455842	61455842	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
TMEM17	200728	broad.mit.edu	37	2	62729571	62729571	+	Splice_Site	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
OTX1	5013	broad.mit.edu	37	2	63281286	63281286	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CEP68	23177	broad.mit.edu	37	2	65299970	65299970	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ACTR2	10097	broad.mit.edu	37	2	65495711	65495711	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
MEIS1	4211	broad.mit.edu	37	2	66664959	66664959	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MCEE	84693	broad.mit.edu	37	2	71351415	71351415	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
DYSF	8291	broad.mit.edu	37	2	71742841	71742841	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
DYSF	8291	broad.mit.edu	37	2	71743355	71743355	+	Nonsense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
EXOC6B	23233	broad.mit.edu	37	2	72719508	72719508	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SPR	6697	broad.mit.edu	37	2	73115582	73115582	+	Silent	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	1	0	
EMX1	2016	broad.mit.edu	37	2	73151580	73151580	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
EGR4	1961	broad.mit.edu	37	2	73519506	73519506	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
EGR4	1961	broad.mit.edu	37	2	73519605	73519605	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ACTG2	72	broad.mit.edu	37	2	74135805	74135805	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
TET3	200424	broad.mit.edu	37	2	74273760	74273760	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
DCTN1	1639	broad.mit.edu	37	2	74597120	74597120	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
SEMA4F	10505	broad.mit.edu	37	2	74902879	74902879	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
MRPL19	9801	broad.mit.edu	37	2	75882354	75882354	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
LRRTM1	347730	broad.mit.edu	37	2	80530382	80530382	+	Missense_Mutation	SNP	T	G	G	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	0.006230	0	0	
POLR1A	25885	broad.mit.edu	37	2	86269169	86269169	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
IMMT	10989	broad.mit.edu	37	2	86386722	86386722	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CD8A	925	broad.mit.edu	37	2	87017544	87017544	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
SMYD1	150572	broad.mit.edu	37	2	88405999	88405999	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
THNSL2	55258	broad.mit.edu	37	2	88474836	88474836	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
THNSL2	55258	broad.mit.edu	37	2	88478470	88478470	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
TEKT4	150483	broad.mit.edu	37	2	95541412	95541412	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
FAHD2A	51011	broad.mit.edu	37	2	96072863	96072863	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ASTL	431705	broad.mit.edu	37	2	96789628	96789628	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
ASTL	431705	broad.mit.edu	37	2	96803388	96803388	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
DUSP2	1844	broad.mit.edu	37	2	96810096	96810096	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ARID5A	10865	broad.mit.edu	37	2	97217936	97217936	+	Silent	SNP	G	A	A	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	0.014410	0	0	
FER1L5	90342	broad.mit.edu	37	2	97369324	97369324	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
FAM178B	51252	broad.mit.edu	37	2	97543757	97543757	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
CNGA3	1261	broad.mit.edu	37	2	98994199	98994199	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
C2orf55	343990	broad.mit.edu	37	2	99411026	99411026	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
PDCL3	79031	broad.mit.edu	37	2	101188116	101188116	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
NPAS2	4862	broad.mit.edu	37	2	101591324	101591324	+	Silent	SNP	G	T	T	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	
IL1R1	3554	broad.mit.edu	37	2	102781763	102781763	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
IL1R1	3554	broad.mit.edu	37	2	102782603	102782603	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
POU3F3	5455	broad.mit.edu	37	2	105472990	105472990	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MRPS9	64965	broad.mit.edu	37	2	105716151	105716151	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
RGPD3	653489	broad.mit.edu	37	2	107041534	107041534	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
LIMS1	3987	broad.mit.edu	37	2	109292351	109292351	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
RANBP2	5903	broad.mit.edu	37	2	109382784	109382784	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
RANBP2	5903	broad.mit.edu	37	2	109382791	109382791	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
RANBP2	5903	broad.mit.edu	37	2	109388156	109388156	+	Splice_Site	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	1	0	
BUB1	699	broad.mit.edu	37	2	111413438	111413438	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
BCL2L11	10018	broad.mit.edu	37	2	111881525	111881525	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CLASP1	23332	broad.mit.edu	37	2	122286340	122286340	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
IWS1	55677	broad.mit.edu	37	2	128249592	128249592	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SAP130	79595	broad.mit.edu	37	2	128750826	128750826	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
CCDC74B	91409	broad.mit.edu	37	2	130897491	130897491	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
SMPD4	55627	broad.mit.edu	37	2	130912735	130912735	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SMPD4	55627	broad.mit.edu	37	2	130931134	130931134	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
LOC401010	401010	broad.mit.edu	37	2	132201995	132201995	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:132201995C>T	uc002tst.2	-	1	473	c.7G>A	c.(7-9)GAG>AAG	p.E3K		NR_002826				SubName: Full=cDNA FLJ12694 fis, clone NT2RP1000358, highly similar to Homo sapiens mRNA; cDNA DKFZp564C186 (from clone DKFZp564C186);												0						TTCCATCTCTCAACCATGGCG	0.577													4	87					0	0	0.001168	0	0	
TUBA3D	113457	broad.mit.edu	37	2	132237972	132237972	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
CCDC74A	90557	broad.mit.edu	37	2	132290615	132290615	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
UBXN4	23190	broad.mit.edu	37	2	136530012	136530012	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
LRP1B	53353	broad.mit.edu	37	2	141143483	141143483	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
LRP1B	53353	broad.mit.edu	37	2	141356355	141356355	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
LRP1B	53353	broad.mit.edu	37	2	141806579	141806579	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
LRP1B	53353	broad.mit.edu	37	2	142238089	142238089	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
KYNU	8942	broad.mit.edu	37	2	143676273	143676273	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
KYNU	8942	broad.mit.edu	37	2	143718341	143718341	+	Splice_Site	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
ARHGAP15	55843	broad.mit.edu	37	2	143913190	143913190	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.006320	0	0	
ARHGAP15	55843	broad.mit.edu	37	2	144276929	144276929	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ZEB2	9839	broad.mit.edu	37	2	145187336	145187336	+	Nonsense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
KIF5C	3800	broad.mit.edu	37	2	149853788	149853788	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
KIF5C	3800	broad.mit.edu	37	2	149868108	149868108	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
RIF1	55183	broad.mit.edu	37	2	152273138	152273138	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
RIF1	55183	broad.mit.edu	37	2	152273371	152273371	+	Silent	SNP	G	A	A	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	
ARL5A	26225	broad.mit.edu	37	2	152670734	152670734	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
STAM2	10254	broad.mit.edu	37	2	152982811	152982811	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
KCNJ3	3760	broad.mit.edu	37	2	155555563	155555563	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
UPP2	151531	broad.mit.edu	37	2	158978111	158978111	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
UPP2	151531	broad.mit.edu	37	2	158978125	158978125	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
PKP4	8502	broad.mit.edu	37	2	159481713	159481713	+	Silent	SNP	C	T	T	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	
TANC1	85461	broad.mit.edu	37	2	160028760	160028760	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
BAZ2B	29994	broad.mit.edu	37	2	160206353	160206353	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
BAZ2B	29994	broad.mit.edu	37	2	160289437	160289437	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
FIGN	55137	broad.mit.edu	37	2	164466663	164466663	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
FIGN	55137	broad.mit.edu	37	2	164467532	164467532	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
GRB14	2888	broad.mit.edu	37	2	165364963	165364963	+	Splice_Site	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
GRB14	2888	broad.mit.edu	37	2	165365296	165365296	+	Missense_Mutation	SNP	T	G	G	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	
COBLL1	22837	broad.mit.edu	37	2	165551885	165551885	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SCN3A	6328	broad.mit.edu	37	2	166019138	166019138	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SCN2A	6326	broad.mit.edu	37	2	166226695	166226695	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
SCN2A	6326	broad.mit.edu	37	2	166243472	166243472	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
TTC21B	79809	broad.mit.edu	37	2	166747086	166747086	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SCN9A	6335	broad.mit.edu	37	2	167083198	167083198	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
XIRP2	129446	broad.mit.edu	37	2	167760302	167760302	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
XIRP2	129446	broad.mit.edu	37	2	168101702	168101702	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
STK39	27347	broad.mit.edu	37	2	169103919	169103919	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TLK1	9874	broad.mit.edu	37	2	171914690	171914690	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
CYBRD1	79901	broad.mit.edu	37	2	172398264	172398264	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
SP3	6670	broad.mit.edu	37	2	174820514	174820514	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CHRNA1	1134	broad.mit.edu	37	2	175618330	175618330	+	Missense_Mutation	SNP	T	C	C	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	
KIAA1715	80856	broad.mit.edu	37	2	176802227	176802227	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
HOXD3	3232	broad.mit.edu	37	2	177034214	177034214	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
TTN	7273	broad.mit.edu	37	2	179391860	179391860	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
TTN	7273	broad.mit.edu	37	2	179446774	179446774	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
TTN	7273	broad.mit.edu	37	2	179451486	179451486	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
TTN	7273	broad.mit.edu	37	2	179483422	179483422	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
TTN	7273	broad.mit.edu	37	2	179495802	179495802	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.003330	0	0	
TTN	7273	broad.mit.edu	37	2	179600514	179600514	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
TTN	7273	broad.mit.edu	37	2	179636101	179636101	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
CWC22	57703	broad.mit.edu	37	2	180815357	180815357	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CERKL	375298	broad.mit.edu	37	2	182468700	182468700	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
FRZB	2487	broad.mit.edu	37	2	183731239	183731239	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF804A	91752	broad.mit.edu	37	2	185801510	185801510	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ZNF804A	91752	broad.mit.edu	37	2	185802505	185802505	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
Unknown	0	broad.mit.edu	37	2	186678388	186678388	+	RNA	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr2:186678388T>C	uc002upm.2	+	2		c.3026T>C			uc010zfu.1_Silent_p.I1146I					Homo sapiens cDNA FLJ44048 fis, clone TESTI4030669.																		CTCATGATATTGATCAAGTGT	0.313													15	27					0	0	0.004990	0	0	
COL3A1	1281	broad.mit.edu	37	2	189849518	189849518	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
COL5A2	1290	broad.mit.edu	37	2	189904010	189904010	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ANKAR	150709	broad.mit.edu	37	2	190557886	190557886	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
MFSD6	54842	broad.mit.edu	37	2	191301720	191301720	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
DNAH7	56171	broad.mit.edu	37	2	196825456	196825456	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
PLCL1	5334	broad.mit.edu	37	2	198950524	198950524	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SATB2	23314	broad.mit.edu	37	2	200245100	200245100	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.008740	0	0	
C2orf60	129450	broad.mit.edu	37	2	200800652	200800652	+	Splice_Site	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
STRADB	55437	broad.mit.edu	37	2	202337729	202337729	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ALS2	57679	broad.mit.edu	37	2	202606542	202606542	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
CDK15	65061	broad.mit.edu	37	2	202712162	202712162	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
WDR12	55759	broad.mit.edu	37	2	203764352	203764352	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
NBEAL1	65065	broad.mit.edu	37	2	204001465	204001465	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ABI2	10152	broad.mit.edu	37	2	204292052	204292052	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
PARD3B	117583	broad.mit.edu	37	2	206480189	206480189	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
MAP2	4133	broad.mit.edu	37	2	210559232	210559232	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
MAP2	4133	broad.mit.edu	37	2	210559555	210559555	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.002780	1	0	
C2orf67	151050	broad.mit.edu	37	2	211018861	211018861	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CPS1	1373	broad.mit.edu	37	2	211469862	211469862	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CPS1	1373	broad.mit.edu	37	2	211471538	211471538	+	Missense_Mutation	SNP	C	T	T	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	
SPAG16	79582	broad.mit.edu	37	2	215013877	215013877	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
BARD1	580	broad.mit.edu	37	2	215632335	215632335	+	Missense_Mutation	SNP	A	G	G	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	
ABCA12	26154	broad.mit.edu	37	2	215838763	215838763	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
FN1	2335	broad.mit.edu	37	2	216257711	216257711	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
FN1	2335	broad.mit.edu	37	2	216271937	216271937	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
FN1	2335	broad.mit.edu	37	2	216274388	216274388	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
FN1	2335	broad.mit.edu	37	2	216299477	216299477	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
RPL37A	6168	broad.mit.edu	37	2	217364716	217364716	+	Silent	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	1	0	
RNF25	64320	broad.mit.edu	37	2	219529962	219529962	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
TTLL4	9654	broad.mit.edu	37	2	219616528	219616528	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
PRKAG3	53632	broad.mit.edu	37	2	219695557	219695557	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
CDK5R2	8941	broad.mit.edu	37	2	219824814	219824814	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
CCDC108	255101	broad.mit.edu	37	2	219894331	219894331	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
SLC23A3	151295	broad.mit.edu	37	2	220034124	220034124	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ATG9A	79065	broad.mit.edu	37	2	220088662	220088662	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
DNAJB2	3300	broad.mit.edu	37	2	220149365	220149365	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
SPEG	10290	broad.mit.edu	37	2	220312963	220312963	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SPEG	10290	broad.mit.edu	37	2	220332065	220332065	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
SPEG	10290	broad.mit.edu	37	2	220336948	220336948	+	Splice_Site	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
SPEG	10290	broad.mit.edu	37	2	220344792	220344792	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SPEG	10290	broad.mit.edu	37	2	220353309	220353309	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SPEG	10290	broad.mit.edu	37	2	220354353	220354353	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ACSL3	2181	broad.mit.edu	37	2	223806301	223806301	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
DOCK10	55619	broad.mit.edu	37	2	225659763	225659763	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
KIAA1486	57624	broad.mit.edu	37	2	226378131	226378131	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
KIAA1486	57624	broad.mit.edu	37	2	226447400	226447400	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
IRS1	3667	broad.mit.edu	37	2	227663319	227663319	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
TRIP12	9320	broad.mit.edu	37	2	230667172	230667172	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
SP110	3431	broad.mit.edu	37	2	231042294	231042294	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SP140	11262	broad.mit.edu	37	2	231112772	231112772	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.006320	0	0	
GPR55	9290	broad.mit.edu	37	2	231774792	231774792	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
GPR55	9290	broad.mit.edu	37	2	231774894	231774894	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	1	0	
ECEL1	9427	broad.mit.edu	37	2	233347857	233347857	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
DNAJB3	414061	broad.mit.edu	37	2	234652351	234652351	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
MSL3L2	151507	broad.mit.edu	37	2	234775346	234775346	+	Missense_Mutation	SNP	G	C	C	rs13384181	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.chr2:234775346G>C	uc010znf.1	-	2	734	c.496C>G	c.(496-498)CCA>GCA	p.P166A		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						GGGGTGGCTGGTTCACCGCTG	0.567													15	21					0	0	0.003163	0	0	
AGAP1	116987	broad.mit.edu	37	2	236877258	236877258	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
GBX2	2637	broad.mit.edu	37	2	237076119	237076119	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
COL6A3	1293	broad.mit.edu	37	2	238285437	238285437	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
PER2	8864	broad.mit.edu	37	2	239162209	239162209	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
HDAC4	9759	broad.mit.edu	37	2	239976501	239976501	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
OR6B2	389090	broad.mit.edu	37	2	240969231	240969231	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
GPR35	2859	broad.mit.edu	37	2	241569510	241569510	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PASK	23178	broad.mit.edu	37	2	242046073	242046073	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
HDLBP	3069	broad.mit.edu	37	2	242186183	242186183	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
THAP4	51078	broad.mit.edu	37	2	242524084	242524084	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	1	0	
PDCD1	5133	broad.mit.edu	37	2	242794422	242794422	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TBC1D20	128637	broad.mit.edu	37	20	422520	422520	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
NSFL1C	55968	broad.mit.edu	37	20	1424489	1424489	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
TGM6	343641	broad.mit.edu	37	20	2398211	2398211	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SIGLEC1	6614	broad.mit.edu	37	20	3677372	3677372	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
C20orf27	54976	broad.mit.edu	37	20	3735139	3735139	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
MAVS	57506	broad.mit.edu	37	20	3842924	3842924	+	Silent	SNP	G	A	A	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	0.002450	0	0	
SLC23A2	9962	broad.mit.edu	37	20	4913147	4913147	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PROKR2	128674	broad.mit.edu	37	20	5294607	5294607	+	Missense_Mutation	SNP	C	T	T	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	
GPCPD1	56261	broad.mit.edu	37	20	5554591	5554591	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
LRRN4	164312	broad.mit.edu	37	20	6022631	6022631	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PLCB4	5332	broad.mit.edu	37	20	9454009	9454009	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ESF1	51575	broad.mit.edu	37	20	13740434	13740434	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ESF1	51575	broad.mit.edu	37	20	13763447	13763447	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SEL1L2	80343	broad.mit.edu	37	20	13868465	13868465	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
SEL1L2	80343	broad.mit.edu	37	20	13912277	13912277	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
KIF16B	55614	broad.mit.edu	37	20	16488730	16488730	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
SNRPB2	6629	broad.mit.edu	37	20	16721539	16721539	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CRNKL1	51340	broad.mit.edu	37	20	20018070	20018070	+	Missense_Mutation	SNP	C	T	T	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	0.014410	0	0	
C20orf26	26074	broad.mit.edu	37	20	20180469	20180469	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
XRN2	22803	broad.mit.edu	37	20	21307158	21307158	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PAX1	5075	broad.mit.edu	37	20	21687619	21687619	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SSTR4	6754	broad.mit.edu	37	20	23016853	23016853	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
CST11	140880	broad.mit.edu	37	20	23433295	23433295	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
CST8	10047	broad.mit.edu	37	20	23473656	23473656	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
CST9L	128821	broad.mit.edu	37	20	23548916	23548916	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF337	26152	broad.mit.edu	37	20	25657018	25657018	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
MYLK2	85366	broad.mit.edu	37	20	30421541	30421541	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
DUSP15	128853	broad.mit.edu	37	20	30436221	30436221	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
HCK	3055	broad.mit.edu	37	20	30681809	30681809	+	Silent	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	1	0	
ASXL1	171023	broad.mit.edu	37	20	31021711	31021711	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ASXL1	171023	broad.mit.edu	37	20	31024634	31024634	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SUN5	140732	broad.mit.edu	37	20	31573693	31573693	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
BPIL3	128859	broad.mit.edu	37	20	31624279	31624279	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
MYH7B	57644	broad.mit.edu	37	20	33577634	33577634	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.003330	0	0	
EDEM2	55741	broad.mit.edu	37	20	33722673	33722673	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.003330	0	0	
CEP250	11190	broad.mit.edu	37	20	34060621	34060621	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
PHF20	51230	broad.mit.edu	37	20	34519240	34519240	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
C20orf4	25980	broad.mit.edu	37	20	34827850	34827850	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.006320	0	0	
C20orf4	25980	broad.mit.edu	37	20	34828400	34828400	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
DLGAP4	22839	broad.mit.edu	37	20	35128652	35128652	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
SLA2	84174	broad.mit.edu	37	20	35242709	35242709	+	Missense_Mutation	SNP	T	C	C	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	
SAMHD1	25939	broad.mit.edu	37	20	35533903	35533903	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
C20orf132	140699	broad.mit.edu	37	20	35766264	35766264	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
TGM2	7052	broad.mit.edu	37	20	36766734	36766734	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
KIAA1755	85449	broad.mit.edu	37	20	36874452	36874452	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
SLC32A1	140679	broad.mit.edu	37	20	37357012	37357012	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ACTR5	79913	broad.mit.edu	37	20	37400389	37400389	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
PLCG1	5335	broad.mit.edu	37	20	39788775	39788775	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PLCG1	5335	broad.mit.edu	37	20	39792749	39792749	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ZHX3	23051	broad.mit.edu	37	20	39832810	39832810	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
EMILIN3	90187	broad.mit.edu	37	20	39990930	39990930	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.008740	0	0	
MYBL2	4605	broad.mit.edu	37	20	42310462	42310462	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
MYBL2	4605	broad.mit.edu	37	20	42331178	42331178	+	Missense_Mutation	SNP	C	T	T	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	
JPH2	57158	broad.mit.edu	37	20	42744601	42744601	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PABPC1L	80336	broad.mit.edu	37	20	43545398	43545398	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
SLPI	6590	broad.mit.edu	37	20	43882339	43882339	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
DNTTIP1	116092	broad.mit.edu	37	20	44433785	44433785	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SNX21	90203	broad.mit.edu	37	20	44469671	44469671	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ZSWIM3	140831	broad.mit.edu	37	20	44506110	44506110	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF335	63925	broad.mit.edu	37	20	44581059	44581059	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF335	63925	broad.mit.edu	37	20	44596988	44596988	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
CDH22	64405	broad.mit.edu	37	20	44869722	44869722	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF334	55713	broad.mit.edu	37	20	45130649	45130649	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
SLC2A10	81031	broad.mit.edu	37	20	45354435	45354435	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
NCOA3	8202	broad.mit.edu	37	20	46282157	46282157	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
PREX1	57580	broad.mit.edu	37	20	47307598	47307598	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ZNFX1	57169	broad.mit.edu	37	20	47864756	47864756	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
B4GALT5	9334	broad.mit.edu	37	20	48257180	48257180	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SALL4	57167	broad.mit.edu	37	20	50400912	50400912	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
SALL4	57167	broad.mit.edu	37	20	50406825	50406825	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	1	0	
ZNF217	7764	broad.mit.edu	37	20	52199045	52199045	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
BCAS1	8537	broad.mit.edu	37	20	52645321	52645321	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
C20orf85	128602	broad.mit.edu	37	20	56735847	56735847	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF831	128611	broad.mit.edu	37	20	57766421	57766421	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
SYCP2	10388	broad.mit.edu	37	20	58456998	58456998	+	Splice_Site	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
SYCP2	10388	broad.mit.edu	37	20	58482429	58482429	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ADRM1	11047	broad.mit.edu	37	20	60883759	60883759	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
LAMA5	3911	broad.mit.edu	37	20	60889901	60889901	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
LAMA5	3911	broad.mit.edu	37	20	60903407	60903407	+	Silent	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
DIDO1	11083	broad.mit.edu	37	20	61525797	61525797	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
DIDO1	11083	broad.mit.edu	37	20	61542719	61542719	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
YTHDF1	54915	broad.mit.edu	37	20	61835087	61835087	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
PRIC285	85441	broad.mit.edu	37	20	62194856	62194856	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ARFRP1	10139	broad.mit.edu	37	20	62331872	62331872	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.003330	0	0	
TPTE	7179	broad.mit.edu	37	21	10942922	10942922	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TPTE	7179	broad.mit.edu	37	21	10942995	10942995	+	Nonsense_Mutation	SNP	G	A	A	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	
TMPRSS15	5651	broad.mit.edu	37	21	19775802	19775802	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
MRPL39	54148	broad.mit.edu	37	21	26965134	26965134	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
ADAMTS5	11096	broad.mit.edu	37	21	28306946	28306946	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
USP16	10600	broad.mit.edu	37	21	30414846	30414846	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
CCT8	10694	broad.mit.edu	37	21	30432959	30432959	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CCT8	10694	broad.mit.edu	37	21	30439211	30439211	+	Splice_Site	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
BACH1	571	broad.mit.edu	37	21	30693751	30693751	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.006230	0	0	
KRTAP19-7	337974	broad.mit.edu	37	21	31933570	31933570	+	Silent	SNP	G	A	A	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	
TIAM1	7074	broad.mit.edu	37	21	32638371	32638371	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
C21orf59	56683	broad.mit.edu	37	21	33954534	33954534	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
OLIG2	10215	broad.mit.edu	37	21	34399391	34399391	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
IFNAR2	3455	broad.mit.edu	37	21	34635727	34635727	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
IFNAR1	3454	broad.mit.edu	37	21	34725143	34725143	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.006230	0	0	
SON	6651	broad.mit.edu	37	21	34924576	34924576	+	Silent	SNP	C	T	T	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	
ITSN1	6453	broad.mit.edu	37	21	35169909	35169909	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
CBR3	874	broad.mit.edu	37	21	37507764	37507764	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
MORC3	23515	broad.mit.edu	37	21	37710133	37710133	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
CHAF1B	8208	broad.mit.edu	37	21	37759988	37759988	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
TTC3	7267	broad.mit.edu	37	21	38529006	38529006	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
DYRK1A	1859	broad.mit.edu	37	21	38845110	38845110	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
KCNJ6	3763	broad.mit.edu	37	21	39087116	39087116	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
DSCR4	10281	broad.mit.edu	37	21	39427042	39427042	+	Nonsense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ERG	2078	broad.mit.edu	37	21	39755781	39755781	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
RIPK4	54101	broad.mit.edu	37	21	43161435	43161435	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
C2CD2	25966	broad.mit.edu	37	21	43342131	43342131	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF295	49854	broad.mit.edu	37	21	43414117	43414117	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
SLC37A1	54020	broad.mit.edu	37	21	43955631	43955631	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
PKNOX1	5316	broad.mit.edu	37	21	44430270	44430270	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
PDXK	8566	broad.mit.edu	37	21	45161602	45161602	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
TRAPPC10	7109	broad.mit.edu	37	21	45472325	45472325	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
PWP2	5822	broad.mit.edu	37	21	45534550	45534550	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
C21orf2	755	broad.mit.edu	37	21	45752928	45752928	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
C21orf29	54084	broad.mit.edu	37	21	45953666	45953666	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.002780	0	0	
KRTAP10-6	386674	broad.mit.edu	37	21	46011724	46011724	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
KRTAP10-9	386676	broad.mit.edu	37	21	46047214	46047214	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ITGB2	3689	broad.mit.edu	37	21	46313382	46313382	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
C21orf70	85395	broad.mit.edu	37	21	46363606	46363606	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ADARB1	104	broad.mit.edu	37	21	46591577	46591577	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
MCM3AP	8888	broad.mit.edu	37	21	47685905	47685905	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
C21orf57	54059	broad.mit.edu	37	21	47711299	47711299	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
C21orf58	54058	broad.mit.edu	37	21	47738113	47738113	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
DIP2A	23181	broad.mit.edu	37	21	47961794	47961794	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
XKR3	150165	broad.mit.edu	37	22	17264918	17264918	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
XKR3	150165	broad.mit.edu	37	22	17265193	17265193	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
CECR5	27440	broad.mit.edu	37	22	17625945	17625945	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CECR1	51816	broad.mit.edu	37	22	17662465	17662465	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CECR2	27443	broad.mit.edu	37	22	17984004	17984004	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
MICAL3	57553	broad.mit.edu	37	22	18368674	18368674	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
USP18	11274	broad.mit.edu	37	22	18643009	18643009	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
TSSK2	23617	broad.mit.edu	37	22	19119658	19119658	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SLC25A1	6576	broad.mit.edu	37	22	19165307	19165307	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
HIRA	7290	broad.mit.edu	37	22	19341012	19341012	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
DGCR8	54487	broad.mit.edu	37	22	20079068	20079068	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PI4KA	5297	broad.mit.edu	37	22	21101932	21101932	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PI4KA	5297	broad.mit.edu	37	22	21156328	21156328	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
LZTR1	8216	broad.mit.edu	37	22	21348936	21348936	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
HIC2	23119	broad.mit.edu	37	22	21799829	21799829	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
HIC2	23119	broad.mit.edu	37	22	21800560	21800560	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
TOP3B	8940	broad.mit.edu	37	22	22317239	22317239	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
TOP3B	8940	broad.mit.edu	37	22	22318552	22318552	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
LOC96610	96610	broad.mit.edu	37	22	22682051	22682051	+	RNA	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr22:22682051G>T	uc011aim.1	+	37		c.3542G>T								Parts of antibodies, mostly variable regions.												0						CGGCCCTCAGGGGTCCCTGAC	0.542													78	192					6.09464e-36	6.55182e-36	0.014410	1	0	
ZNF280B	140883	broad.mit.edu	37	22	22842774	22842774	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF280B	140883	broad.mit.edu	37	22	22843029	22843029	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
GNAZ	2781	broad.mit.edu	37	22	23437986	23437986	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
GGT1	2678	broad.mit.edu	37	22	25024077	25024077	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SGSM1	129049	broad.mit.edu	37	22	25263061	25263061	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
MYO18B	84700	broad.mit.edu	37	22	26165129	26165129	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SRRD	402055	broad.mit.edu	37	22	26884251	26884251	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TFIP11	24144	broad.mit.edu	37	22	26888169	26888169	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CHEK2	11200	broad.mit.edu	37	22	29083889	29083889	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CHEK2	11200	broad.mit.edu	37	22	29083895	29083895	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
CCDC117	150275	broad.mit.edu	37	22	29182081	29182081	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
RFPL1	5988	broad.mit.edu	37	22	29837922	29837922	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
UQCR10	29796	broad.mit.edu	37	22	30163472	30163472	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
SEC14L3	266629	broad.mit.edu	37	22	30864625	30864625	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
PLA2G3	50487	broad.mit.edu	37	22	31533758	31533758	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	1	0	
LIMK2	3985	broad.mit.edu	37	22	31663869	31663869	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
EIF4ENIF1	56478	broad.mit.edu	37	22	31845332	31845332	+	Splice_Site	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
C22orf30	253143	broad.mit.edu	37	22	32108285	32108285	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PVALB	5816	broad.mit.edu	37	22	37209708	37209708	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SSTR3	6753	broad.mit.edu	37	22	37603130	37603130	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SH3BP1	23616	broad.mit.edu	37	22	38051301	38051301	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
GTPBP1	9567	broad.mit.edu	37	22	39123224	39123224	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
APOBEC3D	140564	broad.mit.edu	37	22	39421135	39421135	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TAB1	10454	broad.mit.edu	37	22	39822886	39822886	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
MGAT3	4248	broad.mit.edu	37	22	39883966	39883966	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TNRC6B	23112	broad.mit.edu	37	22	40718965	40718965	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MKL1	57591	broad.mit.edu	37	22	40827407	40827407	+	Splice_Site	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
MCHR1	2847	broad.mit.edu	37	22	41077604	41077604	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.006320	0	0	
EP300	2033	broad.mit.edu	37	22	41523566	41523566	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
L3MBTL2	83746	broad.mit.edu	37	22	41621074	41621074	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
NDUFA6	4700	broad.mit.edu	37	22	42482293	42482293	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
TCF20	6942	broad.mit.edu	37	22	42610373	42610373	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ARFGAP3	26286	broad.mit.edu	37	22	43231499	43231499	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
SCUBE1	80274	broad.mit.edu	37	22	43634937	43634937	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PARVB	29780	broad.mit.edu	37	22	44532343	44532343	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
C22orf9	23313	broad.mit.edu	37	22	45607889	45607889	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
FAM118A	55007	broad.mit.edu	37	22	45723730	45723730	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
SMC1B	27127	broad.mit.edu	37	22	45740473	45740473	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
SMC1B	27127	broad.mit.edu	37	22	45768124	45768124	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PKDREJ	10343	broad.mit.edu	37	22	46658199	46658199	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
CELSR1	9620	broad.mit.edu	37	22	46860228	46860228	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SBF1	6305	broad.mit.edu	37	22	50897976	50897976	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
SBF1	6305	broad.mit.edu	37	22	50900712	50900712	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SHANK3	85358	broad.mit.edu	37	22	51160716	51160716	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
CRBN	51185	broad.mit.edu	37	3	3209403	3209403	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
SETMAR	6419	broad.mit.edu	37	3	4355148	4355148	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ITPR1	3708	broad.mit.edu	37	3	4715002	4715002	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.008740	0	0	
RAD18	56852	broad.mit.edu	37	3	8977591	8977591	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
SRGAP3	9901	broad.mit.edu	37	3	9027593	9027593	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
FANCD2	2177	broad.mit.edu	37	3	10106464	10106464	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
IRAK2	3656	broad.mit.edu	37	3	10242142	10242142	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
SLC6A11	6538	broad.mit.edu	37	3	10976880	10976880	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
RAF1	5894	broad.mit.edu	37	3	12645681	12645681	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
RAF1	5894	broad.mit.edu	37	3	12647712	12647712	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
NUP210	23225	broad.mit.edu	37	3	13372083	13372083	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
NUP210	23225	broad.mit.edu	37	3	13381417	13381417	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
WNT7A	7476	broad.mit.edu	37	3	13860879	13860879	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
SLC6A6	6533	broad.mit.edu	37	3	14487330	14487330	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.008740	0	0	
ZFYVE20	64145	broad.mit.edu	37	3	15124104	15124104	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
RFTN1	23180	broad.mit.edu	37	3	16399539	16399539	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
SATB1	6304	broad.mit.edu	37	3	18393499	18393499	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
KCNH8	131096	broad.mit.edu	37	3	19554757	19554757	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
RARB	5915	broad.mit.edu	37	3	25637960	25637960	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
TOP2B	7155	broad.mit.edu	37	3	25665877	25665877	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
OXSM	54995	broad.mit.edu	37	3	25835717	25835717	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
LRRC3B	116135	broad.mit.edu	37	3	26751767	26751767	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
SLC4A7	9497	broad.mit.edu	37	3	27444675	27444675	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
SLC4A7	9497	broad.mit.edu	37	3	27472885	27472885	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ZCWPW2	152098	broad.mit.edu	37	3	28562525	28562525	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
GPD1L	23171	broad.mit.edu	37	3	32181767	32181767	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
DYNC1LI1	51143	broad.mit.edu	37	3	32586484	32586484	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
TRIM71	131405	broad.mit.edu	37	3	32859684	32859684	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TRIM71	131405	broad.mit.edu	37	3	32860312	32860312	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TRIM71	131405	broad.mit.edu	37	3	32932496	32932496	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ARPP21	10777	broad.mit.edu	37	3	35835235	35835235	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
TRANK1	9881	broad.mit.edu	37	3	36884146	36884146	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
GOLGA4	2803	broad.mit.edu	37	3	37368396	37368396	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
EXOG	9941	broad.mit.edu	37	3	38565616	38565616	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
SCN10A	6336	broad.mit.edu	37	3	38781019	38781019	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TTC21A	199223	broad.mit.edu	37	3	39156128	39156128	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
TTC21A	199223	broad.mit.edu	37	3	39179775	39179775	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
XIRP1	165904	broad.mit.edu	37	3	39228088	39228088	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
XIRP1	165904	broad.mit.edu	37	3	39230771	39230771	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
MYRIP	25924	broad.mit.edu	37	3	40204292	40204292	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MYRIP	25924	broad.mit.edu	37	3	40211476	40211476	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF662	389114	broad.mit.edu	37	3	42950328	42950328	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
SNRK	54861	broad.mit.edu	37	3	43390009	43390009	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF197	10168	broad.mit.edu	37	3	44685542	44685542	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF35	7584	broad.mit.edu	37	3	44700874	44700874	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.006320	0	0	
KIAA1143	57456	broad.mit.edu	37	3	44795767	44795767	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
KIF15	56992	broad.mit.edu	37	3	44816918	44816918	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
LRRC2	79442	broad.mit.edu	37	3	46580617	46580617	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
PTPN23	25930	broad.mit.edu	37	3	47447981	47447981	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
SCAP	22937	broad.mit.edu	37	3	47461115	47461115	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
C3orf75	54859	broad.mit.edu	37	3	47537573	47537573	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
DHX30	22907	broad.mit.edu	37	3	47888784	47888784	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
MAP4	4134	broad.mit.edu	37	3	47896766	47896766	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
ATRIP	84126	broad.mit.edu	37	3	48506470	48506470	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
UQCRC1	7384	broad.mit.edu	37	3	48638787	48638787	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CELSR3	1951	broad.mit.edu	37	3	48692534	48692534	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CELSR3	1951	broad.mit.edu	37	3	48699322	48699322	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
QRICH1	54870	broad.mit.edu	37	3	49084644	49084644	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
QARS	5859	broad.mit.edu	37	3	49137466	49137466	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
USP19	10869	broad.mit.edu	37	3	49149178	49149178	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.006320	1	0	
USP19	10869	broad.mit.edu	37	3	49153556	49153556	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
USP4	7375	broad.mit.edu	37	3	49362429	49362429	+	Silent	SNP	C	T	T	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	0.014410	0	0	
DAG1	1605	broad.mit.edu	37	3	49570262	49570262	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
BSN	8927	broad.mit.edu	37	3	49690049	49690049	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
IP6K1	9807	broad.mit.edu	37	3	49765012	49765012	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
RBM6	10180	broad.mit.edu	37	3	50095840	50095840	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
RASSF1	11186	broad.mit.edu	37	3	50368119	50368119	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
RBM15B	29890	broad.mit.edu	37	3	51431424	51431424	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
VPRBP	9730	broad.mit.edu	37	3	51458330	51458330	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
PCBP4	57060	broad.mit.edu	37	3	51993259	51993259	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TLR9	54106	broad.mit.edu	37	3	52257500	52257500	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
DNAH1	25981	broad.mit.edu	37	3	52412744	52412744	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
DNAH1	25981	broad.mit.edu	37	3	52429688	52429688	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
NISCH	11188	broad.mit.edu	37	3	52522536	52522536	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
STAB1	23166	broad.mit.edu	37	3	52540711	52540711	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
STAB1	23166	broad.mit.edu	37	3	52556376	52556376	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CACNA1D	776	broad.mit.edu	37	3	53766111	53766111	+	Splice_Site	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CACNA1D	776	broad.mit.edu	37	3	53783469	53783469	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CACNA1D	776	broad.mit.edu	37	3	53844288	53844288	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ACTR8	93973	broad.mit.edu	37	3	53904097	53904097	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
LRTM1	57408	broad.mit.edu	37	3	54958882	54958882	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ARHGEF3	50650	broad.mit.edu	37	3	56771226	56771226	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
APPL1	26060	broad.mit.edu	37	3	57294720	57294720	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
FLNB	2317	broad.mit.edu	37	3	57994331	57994331	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ABHD6	57406	broad.mit.edu	37	3	58279454	58279454	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
MAGI1	9223	broad.mit.edu	37	3	65415576	65415576	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.006230	0	0	
MAGI1	9223	broad.mit.edu	37	3	66023680	66023680	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
LRIG1	26018	broad.mit.edu	37	3	66436422	66436422	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
SUCLG2	8801	broad.mit.edu	37	3	67568750	67568750	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
FOXP1	27086	broad.mit.edu	37	3	71247436	71247436	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
PPP4R2	151987	broad.mit.edu	37	3	73108188	73108188	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CNTN3	5067	broad.mit.edu	37	3	74383946	74383946	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ROBO2	6092	broad.mit.edu	37	3	77623872	77623872	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
GBE1	2632	broad.mit.edu	37	3	81548278	81548278	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF654	55279	broad.mit.edu	37	3	88189082	88189082	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
EPHA6	285220	broad.mit.edu	37	3	96706732	96706732	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
DCBLD2	131566	broad.mit.edu	37	3	98538224	98538224	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
DCBLD2	131566	broad.mit.edu	37	3	98541118	98541118	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
FILIP1L	11259	broad.mit.edu	37	3	99567788	99567788	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
C3orf26	84319	broad.mit.edu	37	3	99881157	99881157	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.002780	0	0	
CEP97	79598	broad.mit.edu	37	3	101447772	101447772	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CEP97	79598	broad.mit.edu	37	3	101451384	101451384	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.002780	0	0	
ZPLD1	131368	broad.mit.edu	37	3	102181167	102181167	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
MORC1	27136	broad.mit.edu	37	3	108688562	108688562	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
DPPA4	55211	broad.mit.edu	37	3	109050618	109050618	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
TMPRSS7	344805	broad.mit.edu	37	3	111780751	111780751	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CCDC52	152185	broad.mit.edu	37	3	113176104	113176104	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
UPK1B	7348	broad.mit.edu	37	3	118906708	118906708	+	Silent	SNP	C	T	T	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	0.014410	0	0	
POLQ	10721	broad.mit.edu	37	3	121158854	121158854	+	Silent	SNP	A	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.008740	0	0	
POLQ	10721	broad.mit.edu	37	3	121229067	121229067	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
GOLGB1	2804	broad.mit.edu	37	3	121412910	121412910	+	Missense_Mutation	SNP	G	A	A	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	0.014410	0	0	
PARP14	54625	broad.mit.edu	37	3	122419228	122419228	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
HSPBAP1	79663	broad.mit.edu	37	3	122459517	122459517	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ADCY5	111	broad.mit.edu	37	3	123167070	123167070	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
KALRN	8997	broad.mit.edu	37	3	124174097	124174097	+	Missense_Mutation	SNP	C	T	T	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	0.006230	0	0	
HEG1	57493	broad.mit.edu	37	3	124728615	124728615	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
PLXNA1	5361	broad.mit.edu	37	3	126724974	126724974	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.006320	0	0	
PLXNA1	5361	broad.mit.edu	37	3	126731000	126731000	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PLXNA1	5361	broad.mit.edu	37	3	126748300	126748300	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
MCM2	4171	broad.mit.edu	37	3	127338063	127338063	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
C3orf27	23434	broad.mit.edu	37	3	128292138	128292138	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
IFT122	55764	broad.mit.edu	37	3	129197018	129197018	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
RHO	6010	broad.mit.edu	37	3	129252455	129252455	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
TMCC1	23023	broad.mit.edu	37	3	129389611	129389611	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
TRH	7200	broad.mit.edu	37	3	129695892	129695892	+	Missense_Mutation	SNP	C	T	T	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	0.006320	0	0	
PIK3R4	30849	broad.mit.edu	37	3	130463621	130463621	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ATP2C1	27032	broad.mit.edu	37	3	130694309	130694309	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ASTE1	28990	broad.mit.edu	37	3	130735120	130735120	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
CPNE4	131034	broad.mit.edu	37	3	131404727	131404727	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.003330	0	0	
DNAJC13	23317	broad.mit.edu	37	3	132199275	132199275	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
TF	7018	broad.mit.edu	37	3	133467393	133467393	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
COPB2	9276	broad.mit.edu	37	3	139094430	139094430	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SPSB4	92369	broad.mit.edu	37	3	140785515	140785515	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
XRN1	54464	broad.mit.edu	37	3	142102233	142102233	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PCOLCE2	26577	broad.mit.edu	37	3	142567212	142567212	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
PAQR9	344838	broad.mit.edu	37	3	142681070	142681070	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
PAQR9	344838	broad.mit.edu	37	3	142681213	142681213	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
PLSCR5	389158	broad.mit.edu	37	3	146322995	146322995	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ZIC1	7545	broad.mit.edu	37	3	147128402	147128402	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
HPS3	84343	broad.mit.edu	37	3	148880506	148880506	+	Silent	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
MED12L	116931	broad.mit.edu	37	3	151105758	151105758	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
IGSF10	285313	broad.mit.edu	37	3	151161483	151161483	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
DHX36	170506	broad.mit.edu	37	3	154002694	154002694	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
PLCH1	23007	broad.mit.edu	37	3	155199765	155199765	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
PLCH1	23007	broad.mit.edu	37	3	155200765	155200765	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
SLC33A1	9197	broad.mit.edu	37	3	155571075	155571075	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CCNL1	57018	broad.mit.edu	37	3	156867305	156867305	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SCHIP1	29970	broad.mit.edu	37	3	159605501	159605501	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
SI	6476	broad.mit.edu	37	3	164727162	164727162	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SLITRK3	22865	broad.mit.edu	37	3	164907875	164907875	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
MYNN	55892	broad.mit.edu	37	3	169492087	169492087	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
LRRIQ4	344657	broad.mit.edu	37	3	169546691	169546691	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
PLD1	5337	broad.mit.edu	37	3	171338199	171338199	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PLD1	5337	broad.mit.edu	37	3	171392379	171392379	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	1	0	
FNDC3B	64778	broad.mit.edu	37	3	171965350	171965350	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
FNDC3B	64778	broad.mit.edu	37	3	172003767	172003767	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
NLGN1	22871	broad.mit.edu	37	3	173996754	173996754	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
NLGN1	22871	broad.mit.edu	37	3	173998565	173998565	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
NAALADL2	254827	broad.mit.edu	37	3	174951986	174951986	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
NAALADL2	254827	broad.mit.edu	37	3	174974236	174974236	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
NAALADL2	254827	broad.mit.edu	37	3	175042056	175042056	+	Silent	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PIK3CA	5290	broad.mit.edu	37	3	178917659	178917659	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
PIK3CA	5290	broad.mit.edu	37	3	178952085	178952085	+	Missense_Mutation	SNP	A	G	G	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	
PEX5L	51555	broad.mit.edu	37	3	179519754	179519754	+	Silent	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
DNAJC19	131118	broad.mit.edu	37	3	180703754	180703754	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
KLHL6	89857	broad.mit.edu	37	3	183209880	183209880	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
YEATS2	55689	broad.mit.edu	37	3	183521069	183521069	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ABCC5	10057	broad.mit.edu	37	3	183699621	183699621	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
DVL3	1857	broad.mit.edu	37	3	183881465	183881465	+	Missense_Mutation	SNP	C	T	T	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	0.014410	0	0	
PSMD2	5708	broad.mit.edu	37	3	184019395	184019395	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
PSMD2	5708	broad.mit.edu	37	3	184019718	184019718	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
VPS8	23355	broad.mit.edu	37	3	184769776	184769776	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
TMEM41A	90407	broad.mit.edu	37	3	185214708	185214708	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
C3orf65	646600	broad.mit.edu	37	3	185434524	185434524	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr3:185434524G>A	uc003fpr.2	+	2	533	c.357G>A	c.(355-357)TGG>TGA	p.W119*	IGF2BP2_uc010hyi.2_Intron|IGF2BP2_uc010hyj.2_Intron|IGF2BP2_uc010hyk.2_Intron|IGF2BP2_uc010hyl.2_Intron|IGF2BP2_uc003fpo.2_Intron|IGF2BP2_uc003fpp.2_Intron|IGF2BP2_uc003fpq.2_Intron|C3orf65_uc003fps.3_Intron	NR_027317				RecName: Full=Putative uncharacterized protein C3orf65;												0	all_cancers(143;1.5e-10)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(80;7.41e-21)			GTCAGCGCTGGCTGGTCATCA	0.542													32	48					0	0	0.010818	0	0	
DGKG	1608	broad.mit.edu	37	3	185867951	185867951	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
DNAJB11	51726	broad.mit.edu	37	3	186301745	186301745	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
KNG1	3827	broad.mit.edu	37	3	186459742	186459742	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
LEPREL1	55214	broad.mit.edu	37	3	189711973	189711973	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
GP5	2814	broad.mit.edu	37	3	194117602	194117602	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
LSG1	55341	broad.mit.edu	37	3	194369411	194369411	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
LSG1	55341	broad.mit.edu	37	3	194371733	194371733	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
FAM43A	131583	broad.mit.edu	37	3	194407863	194407863	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
C3orf21	152002	broad.mit.edu	37	3	194790661	194790661	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
TFRC	7037	broad.mit.edu	37	3	195798336	195798336	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
PIGG	54872	broad.mit.edu	37	4	520905	520905	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PDE6B	5158	broad.mit.edu	37	4	656356	656356	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
PDE6B	5158	broad.mit.edu	37	4	657603	657603	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MFSD7	84179	broad.mit.edu	37	4	678549	678549	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
IDUA	3425	broad.mit.edu	37	4	996134	996134	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CTBP1	1487	broad.mit.edu	37	4	1222118	1222118	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.003330	0	0	
KIAA1530	57654	broad.mit.edu	37	4	1348909	1348909	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
KIAA1530	57654	broad.mit.edu	37	4	1374770	1374770	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
HTT	3064	broad.mit.edu	37	4	3234904	3234904	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
RGS12	6002	broad.mit.edu	37	4	3318646	3318646	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
RGS12	6002	broad.mit.edu	37	4	3424186	3424186	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
RGS12	6002	broad.mit.edu	37	4	3430399	3430399	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ADRA2C	152	broad.mit.edu	37	4	3768793	3768793	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ADRA2C	152	broad.mit.edu	37	4	3769594	3769594	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
OTOP1	133060	broad.mit.edu	37	4	4199372	4199372	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
EVC	2121	broad.mit.edu	37	4	5721059	5721059	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
WFS1	7466	broad.mit.edu	37	4	6293722	6293722	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SLC2A9	56606	broad.mit.edu	37	4	9836622	9836622	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
NKX3-2	579	broad.mit.edu	37	4	13545707	13545707	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
BOD1L	259282	broad.mit.edu	37	4	13602222	13602222	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
TAPT1	202018	broad.mit.edu	37	4	16165119	16165119	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.003330	0	0	
GPR125	166647	broad.mit.edu	37	4	22415356	22415356	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
GPR125	166647	broad.mit.edu	37	4	22422524	22422524	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
PPARGC1A	10891	broad.mit.edu	37	4	23815459	23815459	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
RBPJ	3516	broad.mit.edu	37	4	26426078	26426078	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
PCDH7	5099	broad.mit.edu	37	4	30723194	30723194	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TBC1D1	23216	broad.mit.edu	37	4	38016291	38016291	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TBC1D1	23216	broad.mit.edu	37	4	38051444	38051444	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
TBC1D1	23216	broad.mit.edu	37	4	38119751	38119751	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
RPL9	6133	broad.mit.edu	37	4	39458157	39458157	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
LIAS	11019	broad.mit.edu	37	4	39472857	39472857	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
UGDH	7358	broad.mit.edu	37	4	39512403	39512403	+	Missense_Mutation	SNP	G	A	A	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	0.014410	0	0	
N4BP2	55728	broad.mit.edu	37	4	40104430	40104430	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CHRNA9	55584	broad.mit.edu	37	4	40356064	40356064	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
GABRG1	2565	broad.mit.edu	37	4	46053588	46053588	+	Silent	SNP	A	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ATP10D	57205	broad.mit.edu	37	4	47556800	47556800	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TXK	7294	broad.mit.edu	37	4	48115286	48115286	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.003330	0	0	
TEC	7006	broad.mit.edu	37	4	48148398	48148398	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
FRYL	285527	broad.mit.edu	37	4	48501614	48501614	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
LNX1	84708	broad.mit.edu	37	4	54327149	54327149	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
KIT	3815	broad.mit.edu	37	4	55592140	55592140	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.002780	0	0	
KIT	3815	broad.mit.edu	37	4	55593613	55593613	+	Missense_Mutation	SNP	T	C	C	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	
KDR	3791	broad.mit.edu	37	4	55968120	55968120	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
AASDH	132949	broad.mit.edu	37	4	57244456	57244456	+	Missense_Mutation	SNP	T	C	C	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	
SRP72	6731	broad.mit.edu	37	4	57340473	57340473	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TECRL	253017	broad.mit.edu	37	4	65175608	65175608	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
EPHA5	2044	broad.mit.edu	37	4	66280009	66280009	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
UBA6	55236	broad.mit.edu	37	4	68528931	68528931	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
Unknown	0	broad.mit.edu	37	4	69343173	69343173	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:69343173T>G	uc003hdz.3	+	8	858	c.794T>G	c.(793-795)GTC>GGC	p.V265G		NM_014058	NP_054777			transmembrane protease, serine 11E																		AGAATAATTGTCCATGAAAAA	0.408													15	460					0	0	0.003163	0	0	
Unknown	0	broad.mit.edu	37	4	69343205	69343205	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:69343205T>G	uc003hdz.3	+	8	890	c.826T>G	c.(826-828)TAT>GAT	p.Y276D		NM_014058	NP_054777			transmembrane protease, serine 11E																		ATCACATGACTATGATATTTC	0.413													23	527					0	0	0.014323	0	0	
ANKRD17	26057	broad.mit.edu	37	4	73950975	73950975	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ANKRD17	26057	broad.mit.edu	37	4	73964088	73964088	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ANKRD17	26057	broad.mit.edu	37	4	74007512	74007512	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CXCL2	2920	broad.mit.edu	37	4	74964597	74964597	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
SHROOM3	57619	broad.mit.edu	37	4	77661424	77661424	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CCNG2	901	broad.mit.edu	37	4	78081909	78081909	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
FRAS1	80144	broad.mit.edu	37	4	79403543	79403543	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
PAQR3	152559	broad.mit.edu	37	4	79856329	79856329	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
PRKG2	5593	broad.mit.edu	37	4	82096098	82096098	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
LIN54	132660	broad.mit.edu	37	4	83891603	83891603	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
HPSE	10855	broad.mit.edu	37	4	84222192	84222192	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
WDFY3	23001	broad.mit.edu	37	4	85611684	85611684	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
WDFY3	23001	broad.mit.edu	37	4	85658383	85658383	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.006320	0	0	
WDFY3	23001	broad.mit.edu	37	4	85719168	85719168	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
KLHL8	57563	broad.mit.edu	37	4	88106783	88106783	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.002780	0	0	
HERC6	55008	broad.mit.edu	37	4	89311835	89311835	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PDLIM5	10611	broad.mit.edu	37	4	95575764	95575764	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
UNC5C	8633	broad.mit.edu	37	4	96166239	96166239	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ADH5	128	broad.mit.edu	37	4	99996121	99996121	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ADH1A	124	broad.mit.edu	37	4	100203670	100203670	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
RG9MTD2	93587	broad.mit.edu	37	4	100477370	100477370	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
EEF1A1P9	441032	broad.mit.edu	37	4	106406320	106406320	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:106406320A>T	uc003hxt.1	+	1	458	c.328A>T	c.(328-330)ACT>TCT	p.T110S		NR_003586				SubName: Full=Eukaryotic translation elongation factor 1 alpha; Flags: Fragment;												0						AATGGATTCCACTGAGCCACC	0.448													11	117					0	0	0.002450	0	0	
RPL34	6164	broad.mit.edu	37	4	109543723	109543723	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
EGF	1950	broad.mit.edu	37	4	110901129	110901129	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ALPK1	80216	broad.mit.edu	37	4	113353418	113353418	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
ALPK1	80216	broad.mit.edu	37	4	113356333	113356333	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
NEUROG2	63973	broad.mit.edu	37	4	113436383	113436383	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ANK2	287	broad.mit.edu	37	4	114275746	114275746	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	1	0	
ANK2	287	broad.mit.edu	37	4	114277471	114277471	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ANK2	287	broad.mit.edu	37	4	114277794	114277794	+	Nonsense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SEC24D	9871	broad.mit.edu	37	4	119660424	119660424	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
USP53	54532	broad.mit.edu	37	4	120192602	120192602	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
BBS7	55212	broad.mit.edu	37	4	122749572	122749572	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
KIAA1109	84162	broad.mit.edu	37	4	123095782	123095782	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
KIAA1109	84162	broad.mit.edu	37	4	123128729	123128729	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
KIAA1109	84162	broad.mit.edu	37	4	123161262	123161262	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
KIAA1109	84162	broad.mit.edu	37	4	123187969	123187969	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	1	0	
KIAA1109	84162	broad.mit.edu	37	4	123193524	123193524	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
KIAA1109	84162	broad.mit.edu	37	4	123202719	123202719	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
KIAA1109	84162	broad.mit.edu	37	4	123271136	123271136	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
SPRY1	10252	broad.mit.edu	37	4	124323424	124323424	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
FAT4	79633	broad.mit.edu	37	4	126371136	126371136	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
HSPA4L	22824	broad.mit.edu	37	4	128732617	128732617	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
PLK4	10733	broad.mit.edu	37	4	128819592	128819592	+	Splice_Site	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
PGRMC2	10424	broad.mit.edu	37	4	129193591	129193591	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
PCDH10	57575	broad.mit.edu	37	4	134072100	134072100	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PCDH10	57575	broad.mit.edu	37	4	134084157	134084157	+	Silent	SNP	T	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
PCDH18	54510	broad.mit.edu	37	4	138442824	138442824	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
CCRN4L	25819	broad.mit.edu	37	4	139964348	139964348	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.006320	0	0	
C4orf49	84709	broad.mit.edu	37	4	140189882	140189882	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
MAML3	55534	broad.mit.edu	37	4	140640863	140640863	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CLGN	1047	broad.mit.edu	37	4	141317347	141317347	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CLGN	1047	broad.mit.edu	37	4	141323176	141323176	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
IL15	3600	broad.mit.edu	37	4	142651089	142651089	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
USP38	84640	broad.mit.edu	37	4	144135635	144135635	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
TTC29	83894	broad.mit.edu	37	4	147824752	147824752	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MAB21L2	10586	broad.mit.edu	37	4	151504506	151504506	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
FHDC1	85462	broad.mit.edu	37	4	153886120	153886120	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
DCHS2	54798	broad.mit.edu	37	4	155180907	155180907	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
DCHS2	54798	broad.mit.edu	37	4	155219676	155219676	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
MAP9	79884	broad.mit.edu	37	4	156289783	156289783	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
RXFP1	59350	broad.mit.edu	37	4	159568163	159568163	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ETFDH	2110	broad.mit.edu	37	4	159627420	159627420	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ETFDH	2110	broad.mit.edu	37	4	159629557	159629557	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.008740	0	0	
PPID	5481	broad.mit.edu	37	4	159642617	159642617	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ANXA10	11199	broad.mit.edu	37	4	169013864	169013864	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
CLCN3	1182	broad.mit.edu	37	4	170611768	170611768	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
HMGB2	3148	broad.mit.edu	37	4	174254362	174254362	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
AGA	175	broad.mit.edu	37	4	178354503	178354503	+	Splice_Site	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
LOC285501	285501	broad.mit.edu	37	4	178911743	178911743	+	RNA	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:178911743G>A	uc010iru.2	+	6		c.877G>A				NR_028342				Homo sapiens cDNA clone IMAGE:4828874.												0		all_lung(41;6.03e-08)|Lung NSC(41;4.26e-07)|Breast(14;0.00066)|Melanoma(52;0.00168)|Prostate(90;0.0129)|all_hematologic(60;0.0202)|Renal(120;0.0246)|Colorectal(36;0.0508)|Hepatocellular(41;0.236)		all cancers(43;9.24e-25)|Epithelial(43;6.28e-22)|OV - Ovarian serous cystadenocarcinoma(60;5.29e-10)|LUSC - Lung squamous cell carcinoma(1;2.61e-05)|Lung(1;3.22e-05)|GBM - Glioblastoma multiforme(59;0.000185)|Colorectal(24;0.000244)|STAD - Stomach adenocarcinoma(60;0.000777)|COAD - Colon adenocarcinoma(29;0.000884)		CTATGGCTCTGCCGGACTTAC	0.408													12	33					0	0	0.010729	0	0	
ODZ3	55714	broad.mit.edu	37	4	183658145	183658145	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CASP3	836	broad.mit.edu	37	4	185553055	185553055	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SLC25A4	291	broad.mit.edu	37	4	186066006	186066006	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SNX25	83891	broad.mit.edu	37	4	186283815	186283815	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
UFSP2	55325	broad.mit.edu	37	4	186324686	186324686	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
TLR3	7098	broad.mit.edu	37	4	187004019	187004019	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
KLKB1	3818	broad.mit.edu	37	4	187155135	187155135	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
F11	2160	broad.mit.edu	37	4	187192764	187192764	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
FAT1	2195	broad.mit.edu	37	4	187540381	187540381	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
FAT1	2195	broad.mit.edu	37	4	187541428	187541428	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
FAT1	2195	broad.mit.edu	37	4	187628543	187628543	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PLEKHG4B	153478	broad.mit.edu	37	5	156323	156323	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PLEKHG4B	153478	broad.mit.edu	37	5	169705	169705	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
PLEKHG4B	153478	broad.mit.edu	37	5	171406	171406	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
LRRC14B	389257	broad.mit.edu	37	5	194870	194870	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SLC9A3	6550	broad.mit.edu	37	5	481730	481730	+	Silent	SNP	C	T	T	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	0.014410	0	0	
SLC9A3	6550	broad.mit.edu	37	5	484636	484636	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ZDHHC11	79844	broad.mit.edu	37	5	840700	840700	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
IRX1	79192	broad.mit.edu	37	5	3600279	3600279	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ADAMTS16	170690	broad.mit.edu	37	5	5239878	5239878	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
NSUN2	54888	broad.mit.edu	37	5	6604762	6604762	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
PAPD7	11044	broad.mit.edu	37	5	6754991	6754991	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
ADCY2	108	broad.mit.edu	37	5	7709482	7709482	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
DNAH5	1767	broad.mit.edu	37	5	13737440	13737440	+	Silent	SNP	G	A	A	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	0.014410	0	0	
TRIO	7204	broad.mit.edu	37	5	14399145	14399145	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
FAM105B	90268	broad.mit.edu	37	5	14681586	14681586	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
MYO10	4651	broad.mit.edu	37	5	16668508	16668508	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
MYO10	4651	broad.mit.edu	37	5	16670846	16670846	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
NPR3	4883	broad.mit.edu	37	5	32712294	32712294	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
Unknown	0	broad.mit.edu	37	5	33162424	33162424	+	RNA	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:33162424G>A	uc003jhx.2	+	1		c.159G>A								full-length cDNA clone CS0DI021YI22 of Placenta Cot 25-normalized of Homo sapiens (human).																		CACACAGTCCGTGTGCAGGGA	0.557													8	17					0	0	0.008291	0	0	
ADAMTS12	81792	broad.mit.edu	37	5	33596060	33596060	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SLC45A2	51151	broad.mit.edu	37	5	33947401	33947401	+	Missense_Mutation	SNP	G	A	A	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	0.014410	0	0	
BRIX1	55299	broad.mit.edu	37	5	34923248	34923248	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
SPEF2	79925	broad.mit.edu	37	5	35795817	35795817	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
SPEF2	79925	broad.mit.edu	37	5	35800082	35800082	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
NIPBL	25836	broad.mit.edu	37	5	36985832	36985832	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
NIPBL	25836	broad.mit.edu	37	5	37059070	37059070	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
LIFR	3977	broad.mit.edu	37	5	38496504	38496504	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
C9	735	broad.mit.edu	37	5	39331866	39331866	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
DAB2	1601	broad.mit.edu	37	5	39393475	39393475	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
C6	729	broad.mit.edu	37	5	41203199	41203199	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
GHR	2690	broad.mit.edu	37	5	42718856	42718856	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.003330	1	0	
MGC42105	167359	broad.mit.edu	37	5	43280252	43280252	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
NNT	23530	broad.mit.edu	37	5	43656831	43656831	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CDC20B	166979	broad.mit.edu	37	5	54420721	54420721	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
IL31RA	133396	broad.mit.edu	37	5	55168141	55168141	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
DEPDC1B	55789	broad.mit.edu	37	5	59893631	59893631	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
ERCC8	1161	broad.mit.edu	37	5	60198332	60198332	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
KIF2A	3796	broad.mit.edu	37	5	61642978	61642978	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
DIMT1L	27292	broad.mit.edu	37	5	61694653	61694653	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PPWD1	23398	broad.mit.edu	37	5	64881889	64881889	+	Nonsense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PPWD1	23398	broad.mit.edu	37	5	64883133	64883133	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ERBB2IP	55914	broad.mit.edu	37	5	65309420	65309420	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ERBB2IP	55914	broad.mit.edu	37	5	65340099	65340099	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.008740	0	0	
MAST4	375449	broad.mit.edu	37	5	66459345	66459345	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PIK3R1	5295	broad.mit.edu	37	5	67576452	67576452	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
MAP1B	4131	broad.mit.edu	37	5	71491781	71491781	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
FCHO2	115548	broad.mit.edu	37	5	72313086	72313086	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
TMEM171	134285	broad.mit.edu	37	5	72427510	72427510	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
HEXB	3074	broad.mit.edu	37	5	74016518	74016518	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
GFM2	84340	broad.mit.edu	37	5	74026118	74026118	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
POC5	134359	broad.mit.edu	37	5	74981304	74981304	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PDE8B	8622	broad.mit.edu	37	5	76714268	76714268	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CMYA5	202333	broad.mit.edu	37	5	79027098	79027098	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MSH3	4437	broad.mit.edu	37	5	80074641	80074641	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
RASGRF2	5924	broad.mit.edu	37	5	80382666	80382666	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ZCCHC9	84240	broad.mit.edu	37	5	80600735	80600735	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.002780	0	0	
SSBP2	23635	broad.mit.edu	37	5	80762804	80762804	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
LYSMD3	116068	broad.mit.edu	37	5	89815165	89815165	+	Missense_Mutation	SNP	C	T	T	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	
GPR98	84059	broad.mit.edu	37	5	89948258	89948258	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
GPR98	84059	broad.mit.edu	37	5	89979549	89979549	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
GPR98	84059	broad.mit.edu	37	5	89992933	89992933	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
GPR98	84059	broad.mit.edu	37	5	90040924	90040924	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
GPR98	84059	broad.mit.edu	37	5	90041428	90041428	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
GPR98	84059	broad.mit.edu	37	5	90261245	90261245	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ARRDC3	57561	broad.mit.edu	37	5	90670962	90670962	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
FAM81B	153643	broad.mit.edu	37	5	94772530	94772530	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ELL2	22936	broad.mit.edu	37	5	95234064	95234064	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ELL2	22936	broad.mit.edu	37	5	95249542	95249542	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.002780	0	0	
LNPEP	4012	broad.mit.edu	37	5	96322246	96322246	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
LNPEP	4012	broad.mit.edu	37	5	96332172	96332172	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
PPIP5K2	23262	broad.mit.edu	37	5	102508909	102508909	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CAMK4	814	broad.mit.edu	37	5	110710600	110710600	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
APC	324	broad.mit.edu	37	5	112176653	112176653	+	Missense_Mutation	SNP	C	T	T	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	
FTMT	94033	broad.mit.edu	37	5	121187847	121187847	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
PPIC	5480	broad.mit.edu	37	5	122365031	122365031	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
CEP120	153241	broad.mit.edu	37	5	122708465	122708465	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CEP120	153241	broad.mit.edu	37	5	122729096	122729096	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
ZNF608	57507	broad.mit.edu	37	5	123984436	123984436	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
PHAX	51808	broad.mit.edu	37	5	125936659	125936659	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SLC12A2	6558	broad.mit.edu	37	5	127486967	127486967	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
FBN2	2201	broad.mit.edu	37	5	127686661	127686661	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
FNIP1	96459	broad.mit.edu	37	5	131008113	131008113	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
DDX46	9879	broad.mit.edu	37	5	134099624	134099624	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
TXNDC15	79770	broad.mit.edu	37	5	134235275	134235275	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
H2AFY	9555	broad.mit.edu	37	5	134724776	134724776	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
BRD8	10902	broad.mit.edu	37	5	137498869	137498869	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
HSPA9	3313	broad.mit.edu	37	5	137892147	137892147	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
HSPA9	3313	broad.mit.edu	37	5	137895576	137895576	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
PCDHA4	56144	broad.mit.edu	37	5	140188485	140188485	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
PCDHA6	56142	broad.mit.edu	37	5	140209434	140209434	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
PCDHA7	56141	broad.mit.edu	37	5	140216142	140216142	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
PCDHA8	56140	broad.mit.edu	37	5	140221050	140221050	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PCDHAC1	56135	broad.mit.edu	37	5	140308328	140308328	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PCDHAC1	56135	broad.mit.edu	37	5	140308672	140308672	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
PCDHB1	29930	broad.mit.edu	37	5	140431696	140431696	+	Missense_Mutation	SNP	C	T	T	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	0.002450	0	0	
PCDHB2	56133	broad.mit.edu	37	5	140475265	140475265	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
PCDHB8	56128	broad.mit.edu	37	5	140558614	140558614	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
PCDHB11	56125	broad.mit.edu	37	5	140580953	140580953	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PCDHB14	56122	broad.mit.edu	37	5	140603462	140603462	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PCDHB18	54660	broad.mit.edu	37	5	140615853	140615853	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:140615853T>C	uc003ljc.1	+	1	1916	c.1568T>C	c.(1567-1569)GTA>GCA	p.V523A		NR_001281				SubName: Full=Similar to protocadherin-3 (Pcdh3);											ovary(1)	1						ACCGAGCTGGTACCTCGGGCG	0.697													20	35					0	0	0.003954	0	0	
PCDHB15	56121	broad.mit.edu	37	5	140626780	140626780	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
PCDHGB3	56102	broad.mit.edu	37	5	140750900	140750900	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
PCDHGA6	56109	broad.mit.edu	37	5	140754314	140754314	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PCDHGA7	56108	broad.mit.edu	37	5	140762574	140762574	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PCDHGA7	56108	broad.mit.edu	37	5	140763137	140763137	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PCDHGB4	8641	broad.mit.edu	37	5	140769136	140769136	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
PCDHGA8	9708	broad.mit.edu	37	5	140772809	140772809	+	Silent	SNP	C	T	T	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	
PCDHGB7	56099	broad.mit.edu	37	5	140797939	140797939	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.002780	0	0	
PCDHGA12	26025	broad.mit.edu	37	5	140811036	140811036	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
PCDHGA12	26025	broad.mit.edu	37	5	140811779	140811779	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PCDHGA12	26025	broad.mit.edu	37	5	140812627	140812627	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
PCDHGC4	56098	broad.mit.edu	37	5	140867053	140867053	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.006320	0	0	
FCHSD1	89848	broad.mit.edu	37	5	141021298	141021298	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	1	0	
ARAP3	64411	broad.mit.edu	37	5	141035786	141035786	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
HMHB1	57824	broad.mit.edu	37	5	143200049	143200049	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SH3RF2	153769	broad.mit.edu	37	5	145442254	145442254	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.002780	1	0	
RBM27	54439	broad.mit.edu	37	5	145613207	145613207	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
GPR151	134391	broad.mit.edu	37	5	145894652	145894652	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
JAKMIP2	9832	broad.mit.edu	37	5	147024501	147024501	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SH3TC2	79628	broad.mit.edu	37	5	148406227	148406227	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
PDE6A	5145	broad.mit.edu	37	5	149265935	149265935	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PDGFRB	5159	broad.mit.edu	37	5	149513540	149513540	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TCOF1	6949	broad.mit.edu	37	5	149759253	149759253	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
NMUR2	56923	broad.mit.edu	37	5	151784146	151784146	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
HAND1	9421	broad.mit.edu	37	5	153857288	153857288	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
LARP1	23367	broad.mit.edu	37	5	154179464	154179464	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
GEMIN5	25929	broad.mit.edu	37	5	154281007	154281007	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
TIMD4	91937	broad.mit.edu	37	5	156375481	156375481	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
HAVCR1	26762	broad.mit.edu	37	5	156479583	156479583	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
NIPAL4	348938	broad.mit.edu	37	5	156899400	156899400	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
TTC1	7265	broad.mit.edu	37	5	159437849	159437849	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
C1QTNF2	114898	broad.mit.edu	37	5	159797639	159797639	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
PTTG1	9232	broad.mit.edu	37	5	159849801	159849801	+	Silent	SNP	T	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
GABRG2	2566	broad.mit.edu	37	5	161522510	161522510	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ODZ2	57451	broad.mit.edu	37	5	167674786	167674786	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
TLX3	30012	broad.mit.edu	37	5	170736691	170736691	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
FBXW11	23291	broad.mit.edu	37	5	171384609	171384609	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
STK10	6793	broad.mit.edu	37	5	171509453	171509453	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SH3PXD2B	285590	broad.mit.edu	37	5	171765730	171765730	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
MSX2	4488	broad.mit.edu	37	5	174156417	174156417	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ARL10	285598	broad.mit.edu	37	5	175793505	175793505	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ARL10	285598	broad.mit.edu	37	5	175798761	175798761	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
RNF44	22838	broad.mit.edu	37	5	175958479	175958479	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
UNC5A	90249	broad.mit.edu	37	5	176306317	176306317	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
NSD1	64324	broad.mit.edu	37	5	176707797	176707797	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
F12	2161	broad.mit.edu	37	5	176832994	176832994	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
PDLIM7	9260	broad.mit.edu	37	5	176911090	176911090	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.006320	0	0	
FAM193B	54540	broad.mit.edu	37	5	176952098	176952098	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
TMED9	54732	broad.mit.edu	37	5	177020670	177020670	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
HNRNPAB	3182	broad.mit.edu	37	5	177632889	177632889	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF354B	117608	broad.mit.edu	37	5	178310550	178310550	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF354B	117608	broad.mit.edu	37	5	178311048	178311048	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF354C	30832	broad.mit.edu	37	5	178506355	178506355	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ADAMTS2	9509	broad.mit.edu	37	5	178541014	178541014	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
TRIM41	90933	broad.mit.edu	37	5	180651147	180651147	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
FOXC1	2296	broad.mit.edu	37	6	1611083	1611083	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
MYLK4	340156	broad.mit.edu	37	6	2683360	2683360	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
FAM50B	26240	broad.mit.edu	37	6	3850929	3850929	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PRPF4B	8899	broad.mit.edu	37	6	4044165	4044165	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
PRPF4B	8899	broad.mit.edu	37	6	4060797	4060797	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CDYL	9425	broad.mit.edu	37	6	4892220	4892220	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
RREB1	6239	broad.mit.edu	37	6	7229890	7229890	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
RREB1	6239	broad.mit.edu	37	6	7231588	7231588	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
SNRNP48	154007	broad.mit.edu	37	6	7606326	7606326	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TXNDC5	81567	broad.mit.edu	37	6	7904900	7904900	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
PIP5K1P1	206426	broad.mit.edu	37	6	7987138	7987138	+	Silent	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:7987138C>A	uc003mxx.3	+	1	804	c.369C>A	c.(367-369)GCC>GCA	p.A123A	TXNDC5_uc003mxw.2_Intron	NR_027712				RecName: Full=Phosphatidylinositol-4-phosphate 5-kinase type-1 alpha;          Short=PtdIns(4)P-5-kinase alpha;          Short=PIP5KIalpha;          EC=2.7.1.68; AltName: Full=Phosphatidylinositol-4-phosphate 5-kinase type I alpha; AltName: Full=68 kDa type I phosphatidylinositol-4-phosphate 5-kinase alpha;												0						ACTACAATGCCTTCCGTTTCA	0.537													14	78					3.27435e-08	3.40922e-08	0.002450	1	0	
PIP5K1P1	206426	broad.mit.edu	37	6	7987142	7987142	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:7987142C>T	uc003mxx.3	+	1	808	c.373C>T	c.(373-375)CGT>TGT	p.R125C	TXNDC5_uc003mxw.2_Intron	NR_027712				RecName: Full=Phosphatidylinositol-4-phosphate 5-kinase type-1 alpha;          Short=PtdIns(4)P-5-kinase alpha;          Short=PIP5KIalpha;          EC=2.7.1.68; AltName: Full=Phosphatidylinositol-4-phosphate 5-kinase type I alpha; AltName: Full=68 kDa type I phosphatidylinositol-4-phosphate 5-kinase alpha;												0						CAATGCCTTCCGTTTCAAGAC	0.532													31	62					0	0	0.012213	0	0	
EEF1E1	9521	broad.mit.edu	37	6	8090483	8090483	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
Unknown	0	broad.mit.edu	37	6	9933117	9933117	+	RNA	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:9933117C>T	uc003myg.1	-	2		c.130G>A			uc010jog.1_Missense_Mutation_p.D23N|uc003myh.1_Missense_Mutation_p.D48N|uc003myj.1_Missense_Mutation_p.D48N|uc003myk.1_RNA|uc003myn.2_Missense_Mutation_p.D48N|uc010joi.1_Missense_Mutation_p.D116N|uc010joh.1_RNA|uc011dif.1_Missense_Mutation_p.D48N|uc011dig.1_Missense_Mutation_p.D48N					Homo sapiens clone 958LR MRDS1 protein (MRDS1) mRNA, complete cds.																		GCTGAGAGATCTGGACTGCTC	0.448													123	300					0	0	0.014410	0	0	
HIVEP1	3096	broad.mit.edu	37	6	12120215	12120215	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
PHACTR1	221692	broad.mit.edu	37	6	13283685	13283685	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
TBC1D7	51256	broad.mit.edu	37	6	13306708	13306708	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
GFOD1	54438	broad.mit.edu	37	6	13365792	13365792	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
JARID2	3720	broad.mit.edu	37	6	15496925	15496925	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
DTNBP1	84062	broad.mit.edu	37	6	15638027	15638027	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
MYLIP	29116	broad.mit.edu	37	6	16143397	16143397	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
MYLIP	29116	broad.mit.edu	37	6	16145537	16145537	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ATXN1	6310	broad.mit.edu	37	6	16328417	16328417	+	Missense_Mutation	SNP	C	T	T	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	
NUP153	9972	broad.mit.edu	37	6	17626217	17626217	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
KIF13A	63971	broad.mit.edu	37	6	17794613	17794613	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
CDKAL1	54901	broad.mit.edu	37	6	20846385	20846385	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
HIST1H3B	8358	broad.mit.edu	37	6	26032005	26032005	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
HIST1H1E	3008	broad.mit.edu	37	6	26157199	26157199	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
HIST1H2BD	3017	broad.mit.edu	37	6	26158753	26158753	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
HIST1H3E	8353	broad.mit.edu	37	6	26225698	26225698	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
BTN2A1	11120	broad.mit.edu	37	6	26468337	26468337	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	1	0	
HIST1H2BK	85236	broad.mit.edu	37	6	27114322	27114322	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
HIST1H2BL	8340	broad.mit.edu	37	6	27775413	27775413	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
HIST1H1B	3009	broad.mit.edu	37	6	27834749	27834749	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ZKSCAN4	387032	broad.mit.edu	37	6	28213206	28213206	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF311	282890	broad.mit.edu	37	6	28964094	28964094	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
HLA-F	3134	broad.mit.edu	37	6	29692222	29692222	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
HLA-A	3105	broad.mit.edu	37	6	29911191	29911191	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
HLA-C	3107	broad.mit.edu	37	6	31239472	31239472	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
HLA-B	3106	broad.mit.edu	37	6	31324192	31324192	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
BAT2	7916	broad.mit.edu	37	6	31599957	31599957	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PBX2	5089	broad.mit.edu	37	6	32156218	32156218	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
HLA-DQA2	3118	broad.mit.edu	37	6	32713800	32713800	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
TAP2	6891	broad.mit.edu	37	6	32803014	32803014	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
TAP2	6891	broad.mit.edu	37	6	32805593	32805593	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
PSMB8	5696	broad.mit.edu	37	6	32810470	32810470	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
DAXX	1616	broad.mit.edu	37	6	33287839	33287839	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
FANCE	2178	broad.mit.edu	37	6	35423675	35423675	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TULP1	7287	broad.mit.edu	37	6	35471339	35471339	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
KCTD20	222658	broad.mit.edu	37	6	36454812	36454812	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
CDKN1A	1026	broad.mit.edu	37	6	36651993	36651993	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
MTCH1	23787	broad.mit.edu	37	6	36946377	36946377	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
MDGA1	266727	broad.mit.edu	37	6	37623659	37623659	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
GLO1	2739	broad.mit.edu	37	6	38650639	38650639	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
DNAH8	1769	broad.mit.edu	37	6	38743627	38743627	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
DNAH8	1769	broad.mit.edu	37	6	38838249	38838249	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
DNAH8	1769	broad.mit.edu	37	6	38840893	38840893	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
DNAH8	1769	broad.mit.edu	37	6	38913267	38913267	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.006230	0	0	
LRFN2	57497	broad.mit.edu	37	6	40359769	40359769	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
LRFN2	57497	broad.mit.edu	37	6	40399694	40399694	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
UNC5CL	222643	broad.mit.edu	37	6	40996272	40996272	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
NCR2	9436	broad.mit.edu	37	6	41303947	41303947	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
NCR2	9436	broad.mit.edu	37	6	41309564	41309564	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
KIAA0240	23506	broad.mit.edu	37	6	42797264	42797264	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.006230	0	0	
KIAA0240	23506	broad.mit.edu	37	6	42797872	42797872	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
KLHDC3	116138	broad.mit.edu	37	6	42986446	42986446	+	Missense_Mutation	SNP	A	C	C	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	
CUL9	23113	broad.mit.edu	37	6	43155501	43155501	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ZNF318	24149	broad.mit.edu	37	6	43305768	43305768	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF318	24149	broad.mit.edu	37	6	43305890	43305890	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CDC5L	988	broad.mit.edu	37	6	44413480	44413480	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
MEP1A	4224	broad.mit.edu	37	6	46800870	46800870	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
GPR116	221395	broad.mit.edu	37	6	46836655	46836655	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
LRRC1	55227	broad.mit.edu	37	6	53785559	53785559	+	Silent	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
HCRTR2	3062	broad.mit.edu	37	6	55147129	55147129	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
GFRAL	389400	broad.mit.edu	37	6	55214923	55214923	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
BAG2	9532	broad.mit.edu	37	6	57048631	57048631	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
MCART3P	442229	broad.mit.edu	37	6	66498440	66498440	+	RNA	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:66498440T>C	uc011dxw.1	+	1		c.669T>C				NR_026540				Homo sapiens mitochondrial carrier triple repeat 3 pseudogene, mRNA (cDNA clone IMAGE:4821649).												0						TTCAACAACATCGCAATCACA	0.428													5	76					0	0	0.000602	0	0	
OGFRL1	79627	broad.mit.edu	37	6	72011356	72011356	+	Silent	SNP	G	A	A	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	
C6orf221	154288	broad.mit.edu	37	6	74072843	74072843	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
C6orf150	115004	broad.mit.edu	37	6	74138431	74138431	+	Splice_Site	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
MTO1	25821	broad.mit.edu	37	6	74171709	74171709	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CD109	135228	broad.mit.edu	37	6	74517820	74517820	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
COL12A1	1303	broad.mit.edu	37	6	75798835	75798835	+	Silent	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
COL12A1	1303	broad.mit.edu	37	6	75857443	75857443	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
COL12A1	1303	broad.mit.edu	37	6	75875374	75875374	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
PHIP	55023	broad.mit.edu	37	6	79726343	79726343	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
SH3BGRL2	83699	broad.mit.edu	37	6	80406276	80406276	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
TTK	7272	broad.mit.edu	37	6	80751910	80751910	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
TPBG	7162	broad.mit.edu	37	6	83075864	83075864	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
DOPEY1	23033	broad.mit.edu	37	6	83838791	83838791	+	Silent	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PGM3	5238	broad.mit.edu	37	6	83891632	83891632	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.003330	0	0	
RWDD2A	112611	broad.mit.edu	37	6	83905673	83905673	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ME1	4199	broad.mit.edu	37	6	83926226	83926226	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
GABRR1	2569	broad.mit.edu	37	6	89888623	89888623	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
GABRR2	2570	broad.mit.edu	37	6	90024914	90024914	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	1	0	
MDN1	23195	broad.mit.edu	37	6	90409955	90409955	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
MDN1	23195	broad.mit.edu	37	6	90428119	90428119	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
MDN1	23195	broad.mit.edu	37	6	90504397	90504397	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.002780	0	0	
BACH2	60468	broad.mit.edu	37	6	90660168	90660168	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MAP3K7	6885	broad.mit.edu	37	6	91263240	91263240	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
MAP3K7	6885	broad.mit.edu	37	6	91269917	91269917	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
KIAA0776	23376	broad.mit.edu	37	6	96976501	96976501	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
USP45	85015	broad.mit.edu	37	6	99894017	99894017	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.002780	0	0	
SIM1	6492	broad.mit.edu	37	6	100838549	100838549	+	Silent	SNP	C	T	T	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	0.014410	0	0	
ASCC3	10973	broad.mit.edu	37	6	101110345	101110345	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PREP	5550	broad.mit.edu	37	6	105781355	105781355	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
PRDM1	639	broad.mit.edu	37	6	106552829	106552829	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
RTN4IP1	84816	broad.mit.edu	37	6	107076676	107076676	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
SCML4	256380	broad.mit.edu	37	6	108066254	108066254	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SCML4	256380	broad.mit.edu	37	6	108070932	108070932	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SEC63	11231	broad.mit.edu	37	6	108243033	108243033	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
PPIL6	285755	broad.mit.edu	37	6	109752425	109752425	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
FIG4	9896	broad.mit.edu	37	6	110146437	110146437	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.002780	0	0	
CDK19	23097	broad.mit.edu	37	6	110935840	110935840	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
RPF2	84154	broad.mit.edu	37	6	111320915	111320915	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
REV3L	5980	broad.mit.edu	37	6	111695404	111695404	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
TRAF3IP2	10758	broad.mit.edu	37	6	111912880	111912880	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
LAMA4	3910	broad.mit.edu	37	6	112462562	112462562	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
LAMA4	3910	broad.mit.edu	37	6	112528337	112528337	+	Missense_Mutation	SNP	G	A	A	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	
COL10A1	1300	broad.mit.edu	37	6	116442008	116442008	+	Missense_Mutation	SNP	A	G	G	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	
TSPYL1	7259	broad.mit.edu	37	6	116600086	116600086	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
DCBLD1	285761	broad.mit.edu	37	6	117862089	117862089	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
FAM184A	79632	broad.mit.edu	37	6	119285848	119285848	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
FAM184A	79632	broad.mit.edu	37	6	119297200	119297200	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
GJA1	2697	broad.mit.edu	37	6	121768708	121768708	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SERINC1	57515	broad.mit.edu	37	6	122768017	122768017	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
TRDN	10345	broad.mit.edu	37	6	123892227	123892227	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
STL	7955	broad.mit.edu	37	6	125269226	125269226	+	RNA	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:125269226C>T	uc003pzq.2	-	2		c.224G>A				NR_026876				Homo sapiens mRNA; cDNA DKFZp451I132 (from clone DKFZp451I132).												0						TGTAATTTCACGATATCTCTT	0.348			T	ETV6	B-ALL								7	40					0	0	0.001984	0	0	
RSPO3	84870	broad.mit.edu	37	6	127469863	127469863	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
C6orf174	387104	broad.mit.edu	37	6	127836026	127836026	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
PTPRK	5796	broad.mit.edu	37	6	128318067	128318067	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PTPRK	5796	broad.mit.edu	37	6	128643450	128643450	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
LAMA2	3908	broad.mit.edu	37	6	129759812	129759812	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ARG1	383	broad.mit.edu	37	6	131903792	131903792	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
VNN1	8876	broad.mit.edu	37	6	133005526	133005526	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
BCLAF1	9774	broad.mit.edu	37	6	136594249	136594249	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
BCLAF1	9774	broad.mit.edu	37	6	136599095	136599095	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
MAP3K5	4217	broad.mit.edu	37	6	136913728	136913728	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
MAP3K5	4217	broad.mit.edu	37	6	136977530	136977530	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
TNFAIP3	7128	broad.mit.edu	37	6	138200209	138200209	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
REPS1	85021	broad.mit.edu	37	6	139233945	139233945	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
HIVEP2	3097	broad.mit.edu	37	6	143093511	143093511	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	1	0	
PEX3	8504	broad.mit.edu	37	6	143793410	143793410	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
UTRN	7402	broad.mit.edu	37	6	144769741	144769741	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
UTRN	7402	broad.mit.edu	37	6	145160394	145160394	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
STXBP5	134957	broad.mit.edu	37	6	147635760	147635760	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
SASH1	23328	broad.mit.edu	37	6	148853986	148853986	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ZC3H12D	340152	broad.mit.edu	37	6	149777991	149777991	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
LATS1	9113	broad.mit.edu	37	6	150004573	150004573	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
LATS1	9113	broad.mit.edu	37	6	150005445	150005445	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
IYD	389434	broad.mit.edu	37	6	150715265	150715265	+	Silent	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
RMND1	55005	broad.mit.edu	37	6	151766783	151766783	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
SYNE1	23345	broad.mit.edu	37	6	152469422	152469422	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.003330	0	0	
SYNE1	23345	broad.mit.edu	37	6	152557373	152557373	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SYNE1	23345	broad.mit.edu	37	6	152652220	152652220	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
SYNE1	23345	broad.mit.edu	37	6	152718065	152718065	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
SYNE1	23345	broad.mit.edu	37	6	152847248	152847248	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
RBM16	22828	broad.mit.edu	37	6	155154296	155154296	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CLDN20	49861	broad.mit.edu	37	6	155596891	155596891	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
TULP4	56995	broad.mit.edu	37	6	158924465	158924465	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
WTAP	9589	broad.mit.edu	37	6	160164712	160164712	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
LPAL2	80350	broad.mit.edu	37	6	160903847	160903847	+	RNA	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr6:160903847T>C	uc003qtj.2	-	7		c.1037A>G			LPAL2_uc011efy.1_RNA	NR_028093				Homo sapiens cDNA FLJ43922 fis, clone TESTI4012406.												0		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.214)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)		TTGGCTCTGTTGGTGCTGAAA	0.453													25	175					0	0	0.003330	0	0	
PLG	5340	broad.mit.edu	37	6	161152266	161152266	+	Splice_Site	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
MAP3K4	4216	broad.mit.edu	37	6	161502018	161502018	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
MAP3K4	4216	broad.mit.edu	37	6	161527693	161527693	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
UNC93A	54346	broad.mit.edu	37	6	167708156	167708156	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MLLT4	4301	broad.mit.edu	37	6	168348992	168348992	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
KIF25	3834	broad.mit.edu	37	6	168434697	168434697	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
PDCD2	5134	broad.mit.edu	37	6	170889180	170889180	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
HEATR2	54919	broad.mit.edu	37	7	769478	769478	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
HEATR2	54919	broad.mit.edu	37	7	781046	781046	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CHST12	55501	broad.mit.edu	37	7	2472447	2472447	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
C7orf27	221927	broad.mit.edu	37	7	2583482	2583482	+	Missense_Mutation	SNP	C	A	A	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	
FOXK1	221937	broad.mit.edu	37	7	4800727	4800727	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
KIAA0415	9907	broad.mit.edu	37	7	4825182	4825182	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
RADIL	55698	broad.mit.edu	37	7	4856942	4856942	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ACTB	60	broad.mit.edu	37	7	5567755	5567755	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
RNF216	54476	broad.mit.edu	37	7	5692060	5692060	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
PMS2	5395	broad.mit.edu	37	7	6027153	6027153	+	Missense_Mutation	SNP	C	T	T	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	
USP42	84132	broad.mit.edu	37	7	6189299	6189299	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
C7orf28B	221960	broad.mit.edu	37	7	6844665	6844665	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
DGKB	1607	broad.mit.edu	37	7	14733738	14733738	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ISPD	729920	broad.mit.edu	37	7	16317832	16317832	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SNX13	23161	broad.mit.edu	37	7	17861218	17861218	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.006230	0	0	
ABCB5	340273	broad.mit.edu	37	7	20782592	20782592	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SP4	6671	broad.mit.edu	37	7	21469680	21469680	+	Missense_Mutation	SNP	A	T	T	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	
NUPL2	11097	broad.mit.edu	37	7	23224695	23224695	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
GPNMB	10457	broad.mit.edu	37	7	23293054	23293054	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CPVL	54504	broad.mit.edu	37	7	29111511	29111511	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CPVL	54504	broad.mit.edu	37	7	29152370	29152370	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SCRN1	9805	broad.mit.edu	37	7	29994974	29994974	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
NOD1	10392	broad.mit.edu	37	7	30492144	30492144	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ADCYAP1R1	117	broad.mit.edu	37	7	31126133	31126133	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
PDE1C	5137	broad.mit.edu	37	7	31855637	31855637	+	Missense_Mutation	SNP	T	C	C	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	
DPY19L2P1	554236	broad.mit.edu	37	7	35121251	35121251	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:35121251A>G	uc003teq.1	-	22	2462	c.1355T>C	c.(1354-1356)TTC>TCC	p.F452S	DPY19L2P1_uc003tep.1_RNA|DPY19L2P1_uc010kwz.1_RNA					RecName: Full=Protein dpy-19 homolog 2-like 2; AltName: Full=Dpy-19-like protein 2 pseudogene 2;												0						TACTGTGGTGAAGTAAGGCCT	0.443													16	34					0	0	0.007413	0	0	
AOAH	313	broad.mit.edu	37	7	36713584	36713584	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
AMPH	273	broad.mit.edu	37	7	38431519	38431519	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.003330	0	0	
Unknown	0	broad.mit.edu	37	7	39894539	39894539	+	RNA	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:39894539C>A	uc003thg.2	-	1		c.321G>T								full-length cDNA clone CS0DF025YB16 of Fetal brain of Homo sapiens (human).																		GCTTTGGGATCACCATTTTCA	0.388													8	218					3.09899e-07	3.21285e-07	0.004482	1	0	
GLI3	2737	broad.mit.edu	37	7	42005485	42005485	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
GLI3	2737	broad.mit.edu	37	7	42006006	42006006	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
HECW1	23072	broad.mit.edu	37	7	43351483	43351483	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
HECW1	23072	broad.mit.edu	37	7	43484721	43484721	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
HECW1	23072	broad.mit.edu	37	7	43508576	43508576	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
BLVRA	644	broad.mit.edu	37	7	43840132	43840132	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ABCA13	154664	broad.mit.edu	37	7	48312524	48312524	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
FKBP9L	360132	broad.mit.edu	37	7	55755504	55755504	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:55755504G>A	uc010kzl.2	-	4	489	c.389C>T	c.(388-390)CCG>CTG	p.P130L	FKBP9L_uc010kzk.2_Missense_Mutation_p.P19L|FKBP9L_uc003tqt.2_Missense_Mutation_p.P19L|FKBP9L_uc011kcs.1_Missense_Mutation_p.P19L	NR_003949				SubName: Full=cDNA, FLJ79189, highly similar to FK506-binding protein 9 (EC 5.2.1.8);												0						CAGGTGAGGCGGAATGATCAC	0.517													23	35					0	0	0.005443	0	0	
GUSB	2990	broad.mit.edu	37	7	65439552	65439552	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
TYW1B	441250	broad.mit.edu	37	7	72178733	72178733	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
SPDYE7P	441251	broad.mit.edu	37	7	72334865	72334865	+	RNA	SNP	G	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:72334865G>C	uc010lal.1	-	1		c.4791C>G				NR_003666				Homo sapiens speedy homolog E7 (Xenopus laevis), pseudogene (SPDYE7P), non-coding RNA.												0						GGTCCTCGTCGTCCTCCTCCA	0.562													40	78					0	0	0.014410	0	0	
GTF2IRD1	9569	broad.mit.edu	37	7	73933830	73933830	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
POR	5447	broad.mit.edu	37	7	75613126	75613126	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
POR	5447	broad.mit.edu	37	7	75614412	75614412	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.002780	0	0	
ZP3	7784	broad.mit.edu	37	7	76062948	76062948	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
PTPN12	5782	broad.mit.edu	37	7	77210806	77210806	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PHTF2	57157	broad.mit.edu	37	7	77567056	77567056	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CD36	948	broad.mit.edu	37	7	80295776	80295776	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
PCLO	27445	broad.mit.edu	37	7	82785212	82785212	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SEMA3A	10371	broad.mit.edu	37	7	83758471	83758471	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
GRM3	2913	broad.mit.edu	37	7	86416344	86416344	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ABCB1	5243	broad.mit.edu	37	7	87173466	87173466	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ADAM22	53616	broad.mit.edu	37	7	87780626	87780626	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.006320	0	0	
C7orf63	79846	broad.mit.edu	37	7	89939383	89939383	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
CLDN12	9069	broad.mit.edu	37	7	90042450	90042450	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	1	0	
CDK14	5218	broad.mit.edu	37	7	90546964	90546964	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
FZD1	8321	broad.mit.edu	37	7	90894774	90894774	+	Silent	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
AKAP9	10142	broad.mit.edu	37	7	91736658	91736658	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ANKIB1	54467	broad.mit.edu	37	7	92027148	92027148	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
SAMD9	54809	broad.mit.edu	37	7	92732009	92732009	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
SAMD9L	219285	broad.mit.edu	37	7	92761452	92761452	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
SAMD9L	219285	broad.mit.edu	37	7	92763789	92763789	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
COL1A2	1278	broad.mit.edu	37	7	94057063	94057063	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SLC25A13	10165	broad.mit.edu	37	7	95751045	95751045	+	Missense_Mutation	SNP	C	T	T	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	0.014410	0	0	
SLC25A13	10165	broad.mit.edu	37	7	95864143	95864143	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
TECPR1	25851	broad.mit.edu	37	7	97866138	97866138	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TRRAP	8295	broad.mit.edu	37	7	98552728	98552728	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
TRRAP	8295	broad.mit.edu	37	7	98589802	98589802	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ARPC1A	10552	broad.mit.edu	37	7	98957253	98957253	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
CPSF4	10898	broad.mit.edu	37	7	99042427	99042427	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ZNF498	221785	broad.mit.edu	37	7	99219142	99219142	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CYP3A7	1551	broad.mit.edu	37	7	99305499	99305499	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
TAF6	6878	broad.mit.edu	37	7	99705994	99705994	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
GAL3ST4	79690	broad.mit.edu	37	7	99757831	99757831	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
AGFG2	3268	broad.mit.edu	37	7	100160555	100160555	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
LRCH4	4034	broad.mit.edu	37	7	100172795	100172795	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
TFR2	7036	broad.mit.edu	37	7	100218519	100218519	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
GIGYF1	64599	broad.mit.edu	37	7	100285025	100285025	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ZAN	7455	broad.mit.edu	37	7	100352870	100352870	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
EPHB4	2050	broad.mit.edu	37	7	100414922	100414922	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
Unknown	0	broad.mit.edu	37	7	100551402	100551402	+	RNA	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:100551402C>T	uc003uxk.1	+	1		c.653C>T			uc003uxl.1_5'UTR					Homo sapiens MUC3B mRNA for intestinal mucin, partial cds.																		CGTCTGTGGGCACCAGCACTT	0.507													49	94					0	0	0.014410	0	0	
MUC17	140453	broad.mit.edu	37	7	100684691	100684691	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:100684691A>G	uc003uxp.1	+	3	10047	c.9994A>G	c.(9994-9996)ACC>GCC	p.T3332A	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	3332	Extracellular (Potential).|54.|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)					TAGCATGCCAACCTCAACTTA	0.493													145	336					0	0	0.014410	0	0	
ZNHIT1	10467	broad.mit.edu	37	7	100866977	100866977	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
DNAJC2	27000	broad.mit.edu	37	7	102962467	102962467	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MLL5	55904	broad.mit.edu	37	7	104707214	104707214	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PIK3CG	5294	broad.mit.edu	37	7	106513320	106513320	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
COG5	10466	broad.mit.edu	37	7	106964925	106964925	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
GPR22	2845	broad.mit.edu	37	7	107114677	107114677	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
C7orf60	154743	broad.mit.edu	37	7	112535788	112535788	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PPP1R3A	5506	broad.mit.edu	37	7	113558625	113558625	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.006320	0	0	
CAV1	857	broad.mit.edu	37	7	116199315	116199315	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ST7	7982	broad.mit.edu	37	7	116849978	116849978	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.003330	0	0	
CTTNBP2	83992	broad.mit.edu	37	7	117374995	117374995	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	1	0	
CTTNBP2	83992	broad.mit.edu	37	7	117432544	117432544	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PTPRZ1	5803	broad.mit.edu	37	7	121651002	121651002	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
PTPRZ1	5803	broad.mit.edu	37	7	121652965	121652965	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
SLC13A1	6561	broad.mit.edu	37	7	122821124	122821124	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
LMOD2	442721	broad.mit.edu	37	7	123302688	123302688	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
POT1	25913	broad.mit.edu	37	7	124467346	124467346	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
POT1	25913	broad.mit.edu	37	7	124482958	124482958	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
LRRC4	64101	broad.mit.edu	37	7	127669233	127669233	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CCDC136	64753	broad.mit.edu	37	7	128441250	128441250	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
FLNC	2318	broad.mit.edu	37	7	128486164	128486164	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
PODXL	5420	broad.mit.edu	37	7	131191458	131191458	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
PLXNA4	91584	broad.mit.edu	37	7	131864640	131864640	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
PLXNA4	91584	broad.mit.edu	37	7	131895801	131895801	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
SLC35B4	84912	broad.mit.edu	37	7	133979830	133979830	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
NUP205	23165	broad.mit.edu	37	7	135333276	135333276	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
KIAA1549	57670	broad.mit.edu	37	7	138579128	138579128	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
KIAA1549	57670	broad.mit.edu	37	7	138603037	138603037	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ZC3HAV1	56829	broad.mit.edu	37	7	138749712	138749712	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
HIPK2	28996	broad.mit.edu	37	7	139281496	139281496	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
HIPK2	28996	broad.mit.edu	37	7	139281517	139281517	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ADCK2	90956	broad.mit.edu	37	7	140389471	140389471	+	Silent	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
BRAF	673	broad.mit.edu	37	7	140477841	140477841	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
WEE2	494551	broad.mit.edu	37	7	141424039	141424039	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
TAS2R38	5726	broad.mit.edu	37	7	141672607	141672607	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MGAM	8972	broad.mit.edu	37	7	141805634	141805634	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
LOC100124692	100124692	broad.mit.edu	37	7	141871910	141871910	+	RNA	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr7:141871910T>C	uc003vxa.2	+	2		c.284T>C				NR_003717				Homo sapiens cDNA FLJ16351 fis, clone TESTI2039060, moderately similar to Maltase-glucoamylase, intestinal.												0						CAAGAAGAATTCCTATGGTGT	0.398													3	8					0	0	0.004672	0	0	
TRPV6	55503	broad.mit.edu	37	7	142575704	142575704	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
EPHA1	2041	broad.mit.edu	37	7	143091397	143091397	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ARHGEF5	7984	broad.mit.edu	37	7	144077125	144077125	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CNTNAP2	26047	broad.mit.edu	37	7	146829377	146829377	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.002780	1	0	
CNTNAP2	26047	broad.mit.edu	37	7	148112646	148112646	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CUL1	8454	broad.mit.edu	37	7	148489850	148489850	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF786	136051	broad.mit.edu	37	7	148768111	148768111	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF398	57541	broad.mit.edu	37	7	148876131	148876131	+	Silent	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	1	0	
ZNF282	8427	broad.mit.edu	37	7	148921393	148921393	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF862	643641	broad.mit.edu	37	7	149545162	149545162	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF862	643641	broad.mit.edu	37	7	149559482	149559482	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
SMARCD3	6604	broad.mit.edu	37	7	150936822	150936822	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
NUB1	51667	broad.mit.edu	37	7	151074269	151074269	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
XRCC2	7516	broad.mit.edu	37	7	152345981	152345981	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
PAXIP1	22976	broad.mit.edu	37	7	154738278	154738278	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
RNF32	140545	broad.mit.edu	37	7	156437236	156437236	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
NOM1	64434	broad.mit.edu	37	7	156742867	156742867	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
WDR60	55112	broad.mit.edu	37	7	158726880	158726880	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
ERICH1	157697	broad.mit.edu	37	8	623717	623717	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.002780	0	0	
DLGAP2	9228	broad.mit.edu	37	8	1497659	1497659	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
DLGAP2	9228	broad.mit.edu	37	8	1497743	1497743	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
DLGAP2	9228	broad.mit.edu	37	8	1649450	1649450	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MCPH1	79648	broad.mit.edu	37	8	6302632	6302632	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SGK223	157285	broad.mit.edu	37	8	8234255	8234255	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CLDN23	137075	broad.mit.edu	37	8	8560311	8560311	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
XKR6	286046	broad.mit.edu	37	8	10782233	10782233	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
NEIL2	252969	broad.mit.edu	37	8	11637208	11637208	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
NEIL2	252969	broad.mit.edu	37	8	11637331	11637331	+	Silent	SNP	C	T	T	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	
USP17L2	377630	broad.mit.edu	37	8	11995417	11995417	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
C8orf79	57604	broad.mit.edu	37	8	12878636	12878636	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TUSC3	7991	broad.mit.edu	37	8	15508249	15508249	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ZDHHC2	51201	broad.mit.edu	37	8	17053124	17053124	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.002780	0	0	
MTUS1	57509	broad.mit.edu	37	8	17601244	17601244	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
PCM1	5108	broad.mit.edu	37	8	17810504	17810504	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
CSGALNACT1	55790	broad.mit.edu	37	8	19363333	19363333	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
SLC18A1	6570	broad.mit.edu	37	8	20038350	20038350	+	Splice_Site	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
LZTS1	11178	broad.mit.edu	37	8	20110740	20110740	+	Silent	SNP	G	A	A	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	
FGF17	8822	broad.mit.edu	37	8	21904139	21904139	+	Missense_Mutation	SNP	G	A	A	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	0.002450	0	0	
HR	55806	broad.mit.edu	37	8	21978590	21978590	+	Silent	SNP	C	T	T	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	
BMP1	649	broad.mit.edu	37	8	22054897	22054897	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ADAM7	8756	broad.mit.edu	37	8	24324356	24324356	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ADAM7	8756	broad.mit.edu	37	8	24350742	24350742	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ADRA1A	148	broad.mit.edu	37	8	26722095	26722095	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
SCARA3	51435	broad.mit.edu	37	8	27507229	27507229	+	Silent	SNP	C	T	T	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	0.002450	0	0	
SCARA3	51435	broad.mit.edu	37	8	27516732	27516732	+	Missense_Mutation	SNP	C	T	T	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	
ESCO2	157570	broad.mit.edu	37	8	27657181	27657181	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
RBPMS	11030	broad.mit.edu	37	8	30332344	30332344	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
GSR	2936	broad.mit.edu	37	8	30560644	30560644	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
PPP2CB	5516	broad.mit.edu	37	8	30657228	30657228	+	Missense_Mutation	SNP	C	T	T	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	0.014410	0	0	
TEX15	56154	broad.mit.edu	37	8	30694355	30694355	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
DUSP26	78986	broad.mit.edu	37	8	33454979	33454979	+	Missense_Mutation	SNP	G	A	A	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	0.002780	0	0	
UNC5D	137970	broad.mit.edu	37	8	35406931	35406931	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
KCNU1	157855	broad.mit.edu	37	8	36644862	36644862	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF703	80139	broad.mit.edu	37	8	37556077	37556077	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
GPR124	25960	broad.mit.edu	37	8	37696520	37696520	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
RAB11FIP1	80223	broad.mit.edu	37	8	37729770	37729770	+	Silent	SNP	G	A	A	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	
RAB11FIP1	80223	broad.mit.edu	37	8	37734740	37734740	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
GOT1L1	137362	broad.mit.edu	37	8	37791963	37791963	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
WHSC1L1	54904	broad.mit.edu	37	8	38146075	38146075	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ANK1	286	broad.mit.edu	37	8	41542098	41542098	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MYST3	7994	broad.mit.edu	37	8	41798556	41798556	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
HOOK3	84376	broad.mit.edu	37	8	42819609	42819609	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
HGSNAT	138050	broad.mit.edu	37	8	43048914	43048914	+	Silent	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
MCM4	4173	broad.mit.edu	37	8	48888286	48888286	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
PXDNL	137902	broad.mit.edu	37	8	52321166	52321166	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ST18	9705	broad.mit.edu	37	8	53073967	53073967	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
XKR4	114786	broad.mit.edu	37	8	56015361	56015361	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
XKR4	114786	broad.mit.edu	37	8	56015787	56015787	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.002780	0	0	
PLAG1	5324	broad.mit.edu	37	8	57078885	57078885	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
PLAG1	5324	broad.mit.edu	37	8	57079206	57079206	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
CYP7A1	1581	broad.mit.edu	37	8	59407183	59407183	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
NSMAF	8439	broad.mit.edu	37	8	59522202	59522202	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
CHD7	55636	broad.mit.edu	37	8	61765496	61765496	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
MTFR1	9650	broad.mit.edu	37	8	66619270	66619270	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CRH	1392	broad.mit.edu	37	8	67089245	67089245	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MYBL1	4603	broad.mit.edu	37	8	67488460	67488460	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
VCPIP1	80124	broad.mit.edu	37	8	67578127	67578127	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
CSPP1	79848	broad.mit.edu	37	8	68044279	68044279	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ARFGEF1	10565	broad.mit.edu	37	8	68200234	68200234	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CPA6	57094	broad.mit.edu	37	8	68334846	68334846	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
PREX2	80243	broad.mit.edu	37	8	69021847	69021847	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SLCO5A1	81796	broad.mit.edu	37	8	70585127	70585127	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SLCO5A1	81796	broad.mit.edu	37	8	70617453	70617453	+	Missense_Mutation	SNP	C	T	T	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	
NCOA2	10499	broad.mit.edu	37	8	71068739	71068739	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
LACTB2	51110	broad.mit.edu	37	8	71556421	71556421	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
EYA1	2138	broad.mit.edu	37	8	72127938	72127938	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
MSC	9242	broad.mit.edu	37	8	72756065	72756065	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
TRPA1	8989	broad.mit.edu	37	8	72950278	72950278	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
TRPA1	8989	broad.mit.edu	37	8	72973946	72973946	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TMEM70	54968	broad.mit.edu	37	8	74888567	74888567	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
JPH1	56704	broad.mit.edu	37	8	75227698	75227698	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
GDAP1	54332	broad.mit.edu	37	8	75272475	75272475	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ZFHX4	79776	broad.mit.edu	37	8	77616900	77616900	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ZFHX4	79776	broad.mit.edu	37	8	77690625	77690625	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
DCAF4L2	138009	broad.mit.edu	37	8	88885724	88885724	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
NBN	4683	broad.mit.edu	37	8	90976668	90976668	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
DECR1	1666	broad.mit.edu	37	8	91054988	91054988	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SLC26A7	115111	broad.mit.edu	37	8	92307862	92307862	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.006320	0	0	
RBM12B	389677	broad.mit.edu	37	8	94748049	94748049	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
CDH17	1015	broad.mit.edu	37	8	95178128	95178128	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
KIAA1429	25962	broad.mit.edu	37	8	95556148	95556148	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
DPY19L4	286148	broad.mit.edu	37	8	95782684	95782684	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
INTS8	55656	broad.mit.edu	37	8	95862296	95862296	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
INTS8	55656	broad.mit.edu	37	8	95869047	95869047	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
INTS8	55656	broad.mit.edu	37	8	95892454	95892454	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
MATN2	4147	broad.mit.edu	37	8	98900443	98900443	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MATN2	4147	broad.mit.edu	37	8	99019731	99019731	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
HRSP12	10247	broad.mit.edu	37	8	99118537	99118537	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
GRHL2	79977	broad.mit.edu	37	8	102570748	102570748	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
NCALD	83988	broad.mit.edu	37	8	102731641	102731641	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
UBR5	51366	broad.mit.edu	37	8	103287984	103287984	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
UBR5	51366	broad.mit.edu	37	8	103323552	103323552	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
UBR5	51366	broad.mit.edu	37	8	103324440	103324440	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
KLF10	7071	broad.mit.edu	37	8	103664435	103664435	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
FZD6	8323	broad.mit.edu	37	8	104337709	104337709	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
LRP12	29967	broad.mit.edu	37	8	105509440	105509440	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
OXR1	55074	broad.mit.edu	37	8	107695466	107695466	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
OXR1	55074	broad.mit.edu	37	8	107719150	107719150	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ABRA	137735	broad.mit.edu	37	8	107773721	107773721	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
RSPO2	340419	broad.mit.edu	37	8	109001323	109001323	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ENY2	56943	broad.mit.edu	37	8	110348433	110348433	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
PKHD1L1	93035	broad.mit.edu	37	8	110394751	110394751	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
CSMD3	114788	broad.mit.edu	37	8	113237026	113237026	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
CSMD3	114788	broad.mit.edu	37	8	113237134	113237134	+	Nonsense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	1	0	
CSMD3	114788	broad.mit.edu	37	8	113259321	113259321	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.003330	1	0	
CSMD3	114788	broad.mit.edu	37	8	114111072	114111072	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
RAD21	5885	broad.mit.edu	37	8	117859910	117859910	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
MED30	90390	broad.mit.edu	37	8	118541046	118541046	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ENPP2	5168	broad.mit.edu	37	8	120596200	120596200	+	Splice_Site	SNP	A	G	G	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	
TAF2	6873	broad.mit.edu	37	8	120793304	120793304	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
DEPDC6	64798	broad.mit.edu	37	8	120940664	120940664	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
DEPDC6	64798	broad.mit.edu	37	8	120940800	120940800	+	Silent	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
COL14A1	7373	broad.mit.edu	37	8	121256232	121256232	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
HAS2	3037	broad.mit.edu	37	8	122626645	122626645	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ZHX2	22882	broad.mit.edu	37	8	123964414	123964414	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
FAM83A	84985	broad.mit.edu	37	8	124195493	124195493	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
FBXO32	114907	broad.mit.edu	37	8	124516885	124516885	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
KIAA0196	9897	broad.mit.edu	37	8	126095397	126095397	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
GSDMC	56169	broad.mit.edu	37	8	130763802	130763802	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ADCY8	114	broad.mit.edu	37	8	131848574	131848574	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
TG	7038	broad.mit.edu	37	8	133894176	133894176	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
TG	7038	broad.mit.edu	37	8	133906034	133906034	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ZFAT	57623	broad.mit.edu	37	8	135614731	135614731	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ZFAT	57623	broad.mit.edu	37	8	135622749	135622749	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
FAM135B	51059	broad.mit.edu	37	8	139153525	139153525	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
FAM135B	51059	broad.mit.edu	37	8	139153555	139153555	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
SLC45A4	57210	broad.mit.edu	37	8	142225875	142225875	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
TSNARE1	203062	broad.mit.edu	37	8	143395755	143395755	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
BAI1	575	broad.mit.edu	37	8	143623648	143623648	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ZC3H3	23144	broad.mit.edu	37	8	144557662	144557662	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
FAM83H	286077	broad.mit.edu	37	8	144808461	144808461	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
FAM83H	286077	broad.mit.edu	37	8	144810850	144810850	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
EPPK1	83481	broad.mit.edu	37	8	144940491	144940491	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
EPPK1	83481	broad.mit.edu	37	8	144945175	144945175	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
PLEC	5339	broad.mit.edu	37	8	144990850	144990850	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
OPLAH	26873	broad.mit.edu	37	8	145107434	145107434	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
MAF1	84232	broad.mit.edu	37	8	145160998	145160998	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
HEATR7A	727957	broad.mit.edu	37	8	145235329	145235329	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
HSF1	3297	broad.mit.edu	37	8	145533580	145533580	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
FBXL6	26233	broad.mit.edu	37	8	145579642	145579642	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
GPR172A	79581	broad.mit.edu	37	8	145583653	145583653	+	Silent	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.008740	1	0	
CPSF1	29894	broad.mit.edu	37	8	145623173	145623173	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CPSF1	29894	broad.mit.edu	37	8	145623272	145623272	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
SLC39A4	55630	broad.mit.edu	37	8	145638262	145638262	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
RECQL4	9401	broad.mit.edu	37	8	145737617	145737617	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
DOCK8	81704	broad.mit.edu	37	9	332454	332454	+	Silent	SNP	T	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
KANK1	23189	broad.mit.edu	37	9	711135	711135	+	Silent	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.008740	1	0	
SMARCA2	6595	broad.mit.edu	37	9	2161854	2161854	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
RFX3	5991	broad.mit.edu	37	9	3248111	3248111	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
JAK2	3717	broad.mit.edu	37	9	5089710	5089710	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
GLDC	2731	broad.mit.edu	37	9	6610292	6610292	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
PTPRD	5789	broad.mit.edu	37	9	8517997	8517997	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
MPDZ	8777	broad.mit.edu	37	9	13188889	13188889	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CER1	9350	broad.mit.edu	37	9	14722635	14722635	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
Unknown	0	broad.mit.edu	37	9	15047970	15047970	+	RNA	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:15047970A>G	uc003zln.1	-	4		c.691T>C								Homo sapiens cDNA FLJ46077 fis, clone TESTI2003768, weakly  similar to Chloride channel protein 3.																		ATATGTACCAACACCTGGAAT	0.343													13	68					0	0	0.013537	0	0	
TTC39B	158219	broad.mit.edu	37	9	15214159	15214159	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
C9orf93	203238	broad.mit.edu	37	9	15591502	15591502	+	Missense_Mutation	SNP	G	A	A	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	
C9orf93	203238	broad.mit.edu	37	9	15623365	15623365	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.003330	0	0	
C9orf93	203238	broad.mit.edu	37	9	15874651	15874651	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CNTLN	54875	broad.mit.edu	37	9	17394908	17394908	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CNTLN	54875	broad.mit.edu	37	9	17484474	17484474	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
DENND4C	55667	broad.mit.edu	37	9	19372127	19372127	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
SLC24A2	25769	broad.mit.edu	37	9	19516300	19516300	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
KIAA1797	54914	broad.mit.edu	37	9	20885231	20885231	+	Splice_Site	SNP	T	C	C	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	0.014410	0	0	
KLHL9	55958	broad.mit.edu	37	9	21333894	21333894	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
PLAA	9373	broad.mit.edu	37	9	26935204	26935204	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
C9orf72	203228	broad.mit.edu	37	9	27560292	27560292	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ACO1	48	broad.mit.edu	37	9	32423340	32423340	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
NFX1	4799	broad.mit.edu	37	9	33369964	33369964	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
PRSS3	5646	broad.mit.edu	37	9	33796745	33796745	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	1	0	
UBAP2	55833	broad.mit.edu	37	9	33948487	33948487	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
KIF24	347240	broad.mit.edu	37	9	34257342	34257342	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
KIAA1161	57462	broad.mit.edu	37	9	34371269	34371269	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
KIAA1161	57462	broad.mit.edu	37	9	34371837	34371837	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
DNAJB5	25822	broad.mit.edu	37	9	34996633	34996633	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
C9orf131	138724	broad.mit.edu	37	9	35045821	35045821	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.006320	0	0	
ATP8B5P	158381	broad.mit.edu	37	9	35450007	35450007	+	RNA	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:35450007A>G	uc010mkn.1	+	10		c.2857A>G			ATP8B5P_uc010mko.2_RNA|ATP8B5P_uc010mkp.2_RNA|ATP8B5P_uc003zwu.2_Intron					Homo sapiens cDNA, FLJ17320.												0						GTATCAAATCAGTCACTTTTA	0.433													10	70					0	0	0.008291	0	0	
TPM2	7169	broad.mit.edu	37	9	35689707	35689707	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
CREB3	10488	broad.mit.edu	37	9	35736081	35736081	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
RECK	8434	broad.mit.edu	37	9	36121578	36121578	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
RNF38	152006	broad.mit.edu	37	9	36390590	36390590	+	Silent	SNP	T	C	C	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	0.014410	0	0	
MCART1	92014	broad.mit.edu	37	9	37888367	37888367	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.008740	0	0	
ANKRD20A3	441425	broad.mit.edu	37	9	67968390	67968390	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
PGM5P2	595135	broad.mit.edu	37	9	69117758	69117758	+	RNA	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr9:69117758A>G	uc004aff.3	-	4		c.845T>C				NR_002836				Homo sapiens phosphoglucomutase 5 pseudogene 2, mRNA (cDNA clone IMAGE:4121651), with apparent retained intron.												0						GCGAATCTTCAGTTGGCTGGG	0.458													24	77					0	0	0.014323	0	0	
MAMDC2	256691	broad.mit.edu	37	9	72724699	72724699	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
SMC5	23137	broad.mit.edu	37	9	72897376	72897376	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
TMEM2	23670	broad.mit.edu	37	9	74332984	74332984	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
GDA	9615	broad.mit.edu	37	9	74842916	74842916	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TRPM6	140803	broad.mit.edu	37	9	77354647	77354647	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
TRPM6	140803	broad.mit.edu	37	9	77377141	77377141	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
CEP78	84131	broad.mit.edu	37	9	80858467	80858467	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
KIF27	55582	broad.mit.edu	37	9	86504088	86504088	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
NTRK2	4915	broad.mit.edu	37	9	87366958	87366958	+	Missense_Mutation	SNP	T	C	C	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	
ZCCHC6	79670	broad.mit.edu	37	9	88938154	88938154	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
SHC3	53358	broad.mit.edu	37	9	91793254	91793254	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
SECISBP2	79048	broad.mit.edu	37	9	91949479	91949479	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
NOL8	55035	broad.mit.edu	37	9	95062252	95062252	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	1	0	
IPPK	64768	broad.mit.edu	37	9	95400351	95400351	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
IPPK	64768	broad.mit.edu	37	9	95411818	95411818	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
BICD2	23299	broad.mit.edu	37	9	95481493	95481493	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF484	83744	broad.mit.edu	37	9	95609231	95609231	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
PHF2	5253	broad.mit.edu	37	9	96415507	96415507	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
C9orf3	84909	broad.mit.edu	37	9	97555117	97555117	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
C9orf3	84909	broad.mit.edu	37	9	97843020	97843020	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
C9orf102	375748	broad.mit.edu	37	9	98718286	98718286	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CDC14B	8555	broad.mit.edu	37	9	99284802	99284802	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.006230	0	0	
ZNF782	158431	broad.mit.edu	37	9	99581062	99581062	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
KIAA1529	57653	broad.mit.edu	37	9	100119941	100119941	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ANP32B	10541	broad.mit.edu	37	9	100767349	100767349	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
TBC1D2	55357	broad.mit.edu	37	9	100971115	100971115	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
GABBR2	9568	broad.mit.edu	37	9	101243237	101243237	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
TEX10	54881	broad.mit.edu	37	9	103111562	103111562	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
OR13C5	138799	broad.mit.edu	37	9	107361324	107361324	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
OR13C2	392376	broad.mit.edu	37	9	107367363	107367363	+	Silent	SNP	C	T	T	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	0.014410	0	0	
TMEM38B	55151	broad.mit.edu	37	9	108467986	108467986	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
EPB41L4B	54566	broad.mit.edu	37	9	112027297	112027297	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
LPAR1	1902	broad.mit.edu	37	9	113703994	113703994	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
C9orf84	158401	broad.mit.edu	37	9	114538127	114538127	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ROD1	9991	broad.mit.edu	37	9	114986168	114986168	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ALAD	210	broad.mit.edu	37	9	116153209	116153209	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
RGS3	5998	broad.mit.edu	37	9	116276764	116276764	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
AMBP	259	broad.mit.edu	37	9	116823776	116823776	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
KIF12	113220	broad.mit.edu	37	9	116857556	116857556	+	Missense_Mutation	SNP	G	A	A	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	
C9orf91	203197	broad.mit.edu	37	9	117405489	117405489	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
CDK5RAP2	55755	broad.mit.edu	37	9	123220874	123220874	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
GSN	2934	broad.mit.edu	37	9	124064424	124064424	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
PTGS1	5742	broad.mit.edu	37	9	125141137	125141137	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
OR1L6	392390	broad.mit.edu	37	9	125512494	125512494	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
PDCL	5082	broad.mit.edu	37	9	125582652	125582652	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
RC3H2	54542	broad.mit.edu	37	9	125621378	125621378	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ZBTB6	10773	broad.mit.edu	37	9	125673698	125673698	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.002780	0	0	
DENND1A	57706	broad.mit.edu	37	9	126213008	126213008	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
LHX2	9355	broad.mit.edu	37	9	126777427	126777427	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
WDR38	401551	broad.mit.edu	37	9	127618544	127618544	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
PPP6C	5537	broad.mit.edu	37	9	127920587	127920587	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
FAM125B	89853	broad.mit.edu	37	9	129184204	129184204	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
GARNL3	84253	broad.mit.edu	37	9	130075748	130075748	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
GARNL3	84253	broad.mit.edu	37	9	130117639	130117639	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ZNF79	7633	broad.mit.edu	37	9	130206787	130206787	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
LRSAM1	90678	broad.mit.edu	37	9	130251732	130251732	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
FAM129B	64855	broad.mit.edu	37	9	130272565	130272565	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
FAM102A	399665	broad.mit.edu	37	9	130707135	130707135	+	Silent	SNP	G	A	A	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	
FAM102A	399665	broad.mit.edu	37	9	130710444	130710444	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
DNM1	1759	broad.mit.edu	37	9	130980867	130980867	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
SPTAN1	6709	broad.mit.edu	37	9	131349934	131349934	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
NUP188	23511	broad.mit.edu	37	9	131745643	131745643	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
IER5L	389792	broad.mit.edu	37	9	131940298	131940298	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ASS1	445	broad.mit.edu	37	9	133352330	133352330	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
LAMC3	10319	broad.mit.edu	37	9	133952676	133952676	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
NUP214	8021	broad.mit.edu	37	9	134020113	134020113	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
NUP214	8021	broad.mit.edu	37	9	134073761	134073761	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
SETX	23064	broad.mit.edu	37	9	135140330	135140330	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
CEL	1056	broad.mit.edu	37	9	135942495	135942495	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
RPL7A	6130	broad.mit.edu	37	9	136217103	136217103	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
C9orf96	169436	broad.mit.edu	37	9	136256568	136256568	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
FAM163B	642968	broad.mit.edu	37	9	136444295	136444295	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
DBH	1621	broad.mit.edu	37	9	136501550	136501550	+	Silent	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
VAV2	7410	broad.mit.edu	37	9	136671273	136671273	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
COL5A1	1289	broad.mit.edu	37	9	137623460	137623460	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
GLT6D1	360203	broad.mit.edu	37	9	138516095	138516095	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
KCNT1	57582	broad.mit.edu	37	9	138594206	138594206	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
KCNT1	57582	broad.mit.edu	37	9	138662709	138662709	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
KCNT1	57582	broad.mit.edu	37	9	138676625	138676625	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
QSOX2	169714	broad.mit.edu	37	9	139100687	139100687	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
NOTCH1	4851	broad.mit.edu	37	9	139395173	139395173	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
NOTCH1	4851	broad.mit.edu	37	9	139397686	139397686	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TPRN	286262	broad.mit.edu	37	9	140093527	140093527	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
NDOR1	27158	broad.mit.edu	37	9	140110812	140110812	+	Missense_Mutation	SNP	G	A	A	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	
PNPLA7	375775	broad.mit.edu	37	9	140400464	140400464	+	Missense_Mutation	SNP	C	T	T	rs74637847	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.chr9:140400464C>T	uc004cnf.2	-	12	1559	c.1222G>A	c.(1222-1224)GAG>AAG	p.E408K	C9orf167_uc011mew.1_Intron|PNPLA7_uc011mfa.1_Intron|PNPLA7_uc010ncj.1_Missense_Mutation_p.E433K	NM_152286	NP_689499	Q6ZV29	PLPL7_HUMAN	patatin-like phospholipase domain containing 7	408				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)		CCGGGGTGCTCGTCCGAGTGC	0.662													6	11					0	0	0.001984	0	0	
PNPLA7	375775	broad.mit.edu	37	9	140435173	140435173	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
CACNA1B	774	broad.mit.edu	37	9	140850184	140850184	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CACNA1B	774	broad.mit.edu	37	9	140952269	140952269	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CSF2RA	1438	broad.mit.edu	37	X	1409328	1409328	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
SFRS17A	8227	broad.mit.edu	37	X	1712692	1712692	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
GYG2	8908	broad.mit.edu	37	X	2773049	2773049	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
ARSE	415	broad.mit.edu	37	X	2854853	2854853	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
SHROOM2	357	broad.mit.edu	37	X	9900831	9900831	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
OFD1	8481	broad.mit.edu	37	X	13764477	13764477	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
AP1S2	8905	broad.mit.edu	37	X	15864108	15864108	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
TXLNG	55787	broad.mit.edu	37	X	16859704	16859704	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
NHS	4810	broad.mit.edu	37	X	17744154	17744154	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
BEND2	139105	broad.mit.edu	37	X	18234721	18234721	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
CDKL5	6792	broad.mit.edu	37	X	18631319	18631319	+	Missense_Mutation	SNP	A	G	G	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	0.014410	0	0	
CNKSR2	22866	broad.mit.edu	37	X	21667109	21667109	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ZFX	7543	broad.mit.edu	37	X	24228590	24228590	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
PDK3	5165	broad.mit.edu	37	X	24549780	24549780	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
PCYT1B	9468	broad.mit.edu	37	X	24608229	24608229	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
DCAF8L2	347442	broad.mit.edu	37	X	27766824	27766824	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
GK	2710	broad.mit.edu	37	X	30686191	30686191	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.002450	0	0	
DMD	1756	broad.mit.edu	37	X	32613901	32613901	+	Silent	SNP	T	C	C	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	
DMD	1756	broad.mit.edu	37	X	32613904	32613904	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
CXorf22	170063	broad.mit.edu	37	X	35969405	35969405	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
FAM47C	442444	broad.mit.edu	37	X	37027011	37027011	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
FAM47C	442444	broad.mit.edu	37	X	37027801	37027801	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CXorf27	25763	broad.mit.edu	37	X	37850373	37850373	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
OTC	5009	broad.mit.edu	37	X	38268015	38268015	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
BCOR	54880	broad.mit.edu	37	X	39932568	39932568	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
BCOR	54880	broad.mit.edu	37	X	39934153	39934153	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ATP6AP2	10159	broad.mit.edu	37	X	40456500	40456500	+	Splice_Site	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
USP9X	8239	broad.mit.edu	37	X	41000617	41000617	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
USP9X	8239	broad.mit.edu	37	X	41064672	41064672	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
DDX3X	1654	broad.mit.edu	37	X	41201791	41201791	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ELK1	2002	broad.mit.edu	37	X	47497513	47497513	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ELK1	2002	broad.mit.edu	37	X	47497563	47497563	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF81	347344	broad.mit.edu	37	X	47774714	47774714	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SUV39H1	6839	broad.mit.edu	37	X	48558747	48558747	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
GATA1	2623	broad.mit.edu	37	X	48649665	48649665	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
HDAC6	10013	broad.mit.edu	37	X	48673824	48673824	+	Missense_Mutation	SNP	G	A	A	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	
CCDC22	28952	broad.mit.edu	37	X	49093645	49093645	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
AKAP4	8852	broad.mit.edu	37	X	49958505	49958505	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
GPR173	54328	broad.mit.edu	37	X	53106197	53106197	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
KDM5C	8242	broad.mit.edu	37	X	53227772	53227772	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
HUWE1	10075	broad.mit.edu	37	X	53630414	53630414	+	Silent	SNP	G	A	A	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	
WNK3	65267	broad.mit.edu	37	X	54224914	54224914	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
WNK3	65267	broad.mit.edu	37	X	54263437	54263437	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
WNK3	65267	broad.mit.edu	37	X	54319444	54319444	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
APEX2	27301	broad.mit.edu	37	X	55029534	55029534	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
USP51	158880	broad.mit.edu	37	X	55514918	55514918	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
FAAH2	158584	broad.mit.edu	37	X	57337164	57337164	+	Splice_Site	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SPIN4	139886	broad.mit.edu	37	X	62570001	62570001	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
HEPH	9843	broad.mit.edu	37	X	65415012	65415012	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
OPHN1	4983	broad.mit.edu	37	X	67333078	67333078	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
KIF4A	24137	broad.mit.edu	37	X	69521784	69521784	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CITED1	4435	broad.mit.edu	37	X	71522015	71522015	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
TSIX	9383	broad.mit.edu	37	X	73044491	73044491	+	RNA	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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:73044491C>T	uc004ebn.2	+	1		c.32452C>T			XIST_uc004ebm.1_RNA	NR_003255				Homo sapiens XIST antisense RNA (non-protein coding) (TSIX), non-coding RNA.												0						ATACAGAAAGCATCAAATTTT	0.313													11	14					0	0	0.010729	0	0	
TSIX	9383	broad.mit.edu	37	X	73046077	73046077	+	RNA	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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:73046077C>T	uc004ebn.2	+	1		c.34038C>T			XIST_uc004ebm.1_RNA	NR_003255				Homo sapiens XIST antisense RNA (non-protein coding) (TSIX), non-coding RNA.												0						GAGAGCCTGGCACTTTTTTTT	0.428													39	108					0	0	0.009718	0	0	
XIST	7503	broad.mit.edu	37	X	73071875	73071875	+	RNA	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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:73071875G>A	uc004ebm.1	-	1		c.714C>T				NR_001564				Homo sapiens cDNA: FLJ21545 fis, clone COL06195.												0						GGTATCCGCGGCCCCGATGGG	0.433													6	13					0	0	0.001168	0	0	
KIAA2022	340533	broad.mit.edu	37	X	73961874	73961874	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
KIAA2022	340533	broad.mit.edu	37	X	73964061	73964061	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
ABCB7	22	broad.mit.edu	37	X	74318830	74318830	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ATRX	546	broad.mit.edu	37	X	76875932	76875932	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
LPAR4	2846	broad.mit.edu	37	X	78010974	78010974	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
Unknown	0	broad.mit.edu	37	X	80185645	80185645	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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:80185645A>G	uc004eec.1	+	1	718	c.544A>G	c.(544-546)ACG>GCG	p.T182A						SubName: Full=cDNA FLJ16670 fis, clone THYMU3001133, highly similar to Voltage-dependent anion-selective channel protein 1; SubName: Full=Voltage-dependent anion channel 1, isoform CRA_a;																		AAACAGTAACACGCGCTTCGG	0.498													4	175					0	0	0.009096	0	0	
SATL1	340562	broad.mit.edu	37	X	84363505	84363505	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
CHM	1121	broad.mit.edu	37	X	85218946	85218946	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
DIAPH2	1730	broad.mit.edu	37	X	96213149	96213149	+	Splice_Site	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
SRPX2	27286	broad.mit.edu	37	X	99919891	99919891	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
Unknown	0	broad.mit.edu	37	X	100143424	100143424	+	RNA	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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:100143424G>A	uc010nnf.2	-	1		c.194C>T			uc004egm.2_RNA					full-length cDNA clone CS0DA010YB10 of Neuroblastoma of Homo sapiens (human).																		CCCCTGGAGCGCTTGGTGTTT	0.527													6	19					0	0	0.001168	0	0	
DRP2	1821	broad.mit.edu	37	X	100515565	100515565	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
RPL36A	6173	broad.mit.edu	37	X	100646445	100646445	+	Splice_Site	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
HNRNPH2	3188	broad.mit.edu	37	X	100667240	100667240	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.003330	0	0	
TCEAL6	158931	broad.mit.edu	37	X	101395936	101395936	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
GPRASP2	114928	broad.mit.edu	37	X	101969872	101969872	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
GPRASP2	114928	broad.mit.edu	37	X	101970123	101970123	+	Missense_Mutation	SNP	G	A	A	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	0.014410	0	0	
CXorf57	55086	broad.mit.edu	37	X	105883944	105883944	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
RBM41	55285	broad.mit.edu	37	X	106312575	106312575	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
TSC22D3	1831	broad.mit.edu	37	X	106957919	106957919	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	1	0	
TSC22D3	1831	broad.mit.edu	37	X	107018394	107018394	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
MID2	11043	broad.mit.edu	37	X	107148791	107148791	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
TEX13B	56156	broad.mit.edu	37	X	107225187	107225187	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
COL4A5	1287	broad.mit.edu	37	X	107930771	107930771	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
IRS4	8471	broad.mit.edu	37	X	107977646	107977646	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
IRS4	8471	broad.mit.edu	37	X	107979483	107979483	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
TRPC5	7224	broad.mit.edu	37	X	111095589	111095589	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
TRPC5	7224	broad.mit.edu	37	X	111155755	111155755	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
LHFPL1	340596	broad.mit.edu	37	X	111914429	111914429	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
AMOT	154796	broad.mit.edu	37	X	112033828	112033828	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
Unknown	0	broad.mit.edu	37	X	114953364	114953364	+	RNA	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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:114953364G>A	uc004eqf.2	-	1		c.301C>T								full-length cDNA clone CS0DJ015YA07 of T cells (Jurkat cell line) Cot 10-normalized of Homo sapiens (human).																		GTTGCCCGTCGAATCGGAATC	0.443													7	126					0	0	0.001984	0	0	
KLHL13	90293	broad.mit.edu	37	X	117053538	117053538	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
WDR44	54521	broad.mit.edu	37	X	117576542	117576542	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
DOCK11	139818	broad.mit.edu	37	X	117677508	117677508	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
KIAA1210	57481	broad.mit.edu	37	X	118215323	118215323	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
CXorf56	63932	broad.mit.edu	37	X	118694255	118694255	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
UPF3B	65109	broad.mit.edu	37	X	118972430	118972430	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ZBTB33	10009	broad.mit.edu	37	X	119388375	119388375	+	Nonsense_Mutation	SNP	G	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
CUL4B	8450	broad.mit.edu	37	X	119708425	119708425	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
MCTS1	28985	broad.mit.edu	37	X	119742205	119742205	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
STAG2	10735	broad.mit.edu	37	X	123195082	123195082	+	Silent	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ODZ1	10178	broad.mit.edu	37	X	123518480	123518480	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
ODZ1	10178	broad.mit.edu	37	X	123526044	123526044	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
BCORL1	63035	broad.mit.edu	37	X	129147330	129147330	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
BCORL1	63035	broad.mit.edu	37	X	129159178	129159178	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
RAB33A	9363	broad.mit.edu	37	X	129318513	129318513	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
SLC25A14	9016	broad.mit.edu	37	X	129505599	129505599	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
ENOX2	10495	broad.mit.edu	37	X	129801573	129801573	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
FAM122C	159091	broad.mit.edu	37	X	133988192	133988192	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ZNF75D	7626	broad.mit.edu	37	X	134421382	134421382	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
DDX26B	203522	broad.mit.edu	37	X	134711258	134711258	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
SAGE1	55511	broad.mit.edu	37	X	134993422	134993422	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
MAP7D3	79649	broad.mit.edu	37	X	135308143	135308143	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
GPR112	139378	broad.mit.edu	37	X	135494507	135494507	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
HTATSF1	27336	broad.mit.edu	37	X	135582956	135582956	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.008740	0	0	
ARHGEF6	9459	broad.mit.edu	37	X	135764958	135764958	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4361-01A-01D-1158-08	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	
ARHGEF6	9459	broad.mit.edu	37	X	135790867	135790867	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	0.003330	0	0	
RBMX	27316	broad.mit.edu	37	X	135961537	135961537	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	
ZIC3	7547	broad.mit.edu	37	X	136652218	136652218	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
FGF13	2258	broad.mit.edu	37	X	138286367	138286367	+	Translation_Start_Site	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
MIR891A	100126341	broad.mit.edu	37	X	145109341	145109341	+	RNA	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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:145109341A>G	hsa-mir-891a|MI0005524	-			c.50A>G																				0						aacatgtgCCACTGAGTATTT	0.353													7	69					0	0	0.001984	0	0	
PASD1	139135	broad.mit.edu	37	X	150842541	150842541	+	Silent	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.003080	0	0	
DUSP9	1852	broad.mit.edu	37	X	152914972	152914972	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	
SLC6A8	6535	broad.mit.edu	37	X	152959593	152959593	+	Silent	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
IDH3G	3421	broad.mit.edu	37	X	153052989	153052989	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.004990	0	0	
HCFC1	3054	broad.mit.edu	37	X	153222823	153222823	+	Silent	SNP	C	T	T			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
MECP2	4204	broad.mit.edu	37	X	153296142	153296142	+	Silent	SNP	G	A	A	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	
OPN1LW	5956	broad.mit.edu	37	X	153416152	153416152	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.008740	0	0	
OPN1LW	5956	broad.mit.edu	37	X	153416196	153416196	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
OPN1LW	5956	broad.mit.edu	37	X	153416331	153416331	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4361-01A-01D-1158-08	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	0.002780	0	0	
RPL10	6134	broad.mit.edu	37	X	153628915	153628915	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4361-01A-01D-1158-08	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	0.014410	0	0	
MTCP1	4515	broad.mit.edu	37	X	154293909	154293909	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4361-01A-01D-1158-08	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	
MEGF6	1953	broad.mit.edu	37	1	3410404	3410404	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:3410404delC	uc001akl.2	-	34	4545	c.4318delG	c.(4318-4320)GCAfs	p.A1440fs	MEGF6_uc001akk.2_Intron	NM_001409	NP_001400	O75095	MEGF6_HUMAN	EGF-like-domain, multiple 3 precursor	1440						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)		TCACAGGGTGCCCCCCCGTCA	0.667													10	8	---	---	---	---						.
MYOM3	127294	broad.mit.edu	37	1	24397622	24397624	+	In_Frame_Del	DEL	CTC	-	-			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	---	---	---	---						.
ASB17	127247	broad.mit.edu	37	1	76387916	76387916	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	---	---	---	---						.
STXBP3	6814	broad.mit.edu	37	1	109342883	109342885	+	In_Frame_Del	DEL	TTG	-	-			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	---	---	---	---						.
LOC647121	647121	broad.mit.edu	37	1	121298329	121298329	+	RNA	DEL	A	-	-			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr1:121298329delA	uc001eiu.1	+	2		c.370delA				NR_003955				Homo sapiens cDNA FLJ46881 fis, clone UTERU3015647, moderately similar to Embigin precursor.												0						ATGCCAGTAGAAAAAAACATC	0.323													52	111	---	---	---	---						.
HSPA6	3310	broad.mit.edu	37	1	161495044	161495044	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	---	---	---	---						.
HMCN1	83872	broad.mit.edu	37	1	186094843	186094843	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	---	---	---	---						.
KIF26B	55083	broad.mit.edu	37	1	245847605	245847605	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4361-01A-01D-1158-08	TCGA-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	---	---	---	---						.
DCLRE1C	64421	broad.mit.edu	37	10	14950433	14950433	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
DNAJC1	64215	broad.mit.edu	37	10	22048437	22048437	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
GDF2	2658	broad.mit.edu	37	10	48414131	48414131	+	Frame_Shift_Del	DEL	G	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
DNA2	1763	broad.mit.edu	37	10	70192211	70192211	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
TET1	80312	broad.mit.edu	37	10	70332153	70332153	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr10:70332153delA	uc001jok.3	+	2	563	c.58delA	c.(58-60)AAAfs	p.K20fs		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	20					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						AGATGTAAACAAAAAAAAGAA	0.413													16	30	---	---	---	---						.
VPS26A	9559	broad.mit.edu	37	10	70930940	70930940	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
LRIT1	26103	broad.mit.edu	37	10	86001144	86001144	+	Frame_Shift_Del	DEL	G	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
INPP5F	22876	broad.mit.edu	37	10	121587063	121587065	+	In_Frame_Del	DEL	CTT	-	-	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	---	---	---	---						.
B4GALNT4	338707	broad.mit.edu	37	11	380921	380921	+	Frame_Shift_Del	DEL	G	-	-	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	---	---	---	---						.
CCDC73	493860	broad.mit.edu	37	11	32637520	32637520	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:32637520delT	uc001mtv.2	-	15	1385	c.1341delA	c.(1339-1341)AAAfs	p.K447fs	CCDC73_uc001mtw.1_Frame_Shift_Del_p.K437fs	NM_001008391	NP_001008392	Q6ZRK6	CCD73_HUMAN	sarcoma antigen NY-SAR-79	447										ovary(1)|central_nervous_system(1)	2	Breast(20;0.112)					ATGAGCCTTCTTTTTTTTCTT	0.209													10	12	---	---	---	---						.
SPI1	6688	broad.mit.edu	37	11	47399860	47399861	+	Frame_Shift_Ins	INS	-	G	G			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
RTN4RL2	349667	broad.mit.edu	37	11	57244233	57244233	+	Frame_Shift_Del	DEL	G	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
CCDC88B	283234	broad.mit.edu	37	11	64121543	64121543	+	Frame_Shift_Del	DEL	G	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
ME3	10873	broad.mit.edu	37	11	86157515	86157515	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
MIR548L	100302275	broad.mit.edu	37	11	94199691	94199691	+	RNA	DEL	T	-	-			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr11:94199691delT	hsa-mir-548l|MI0006361	-			c.56delT			MRE11A_uc001peu.2_Intron|MRE11A_uc001pev.2_Intron|MRE11A_uc009ywj.2_Intron																	0						gtaactgcagtttttgccatt	0.164													37	66	---	---	---	---						.
PDZD3	79849	broad.mit.edu	37	11	119058341	119058341	+	Frame_Shift_Del	DEL	G	-	-	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	---	---	---	---						.
KDM5A	5927	broad.mit.edu	37	12	419071	419071	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
C1RL	51279	broad.mit.edu	37	12	7249400	7249400	+	Frame_Shift_Del	DEL	G	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
KLRA1	10748	broad.mit.edu	37	12	10748370	10748370	+	RNA	DEL	T	-	-			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr12:10748370delT	uc010shf.1	-	4		c.728delA			KLRA1_uc010shg.1_RNA|KLRA1_uc009zho.2_RNA|KLRA1_uc009zhn.2_Intron	NM_006611				Homo sapiens Ly-49L (LY49L) mRNA, complete cds.												0						ATCCAGTTCCTTTTTCTGCTG	0.308													23	47	---	---	---	---						.
KIF21A	55605	broad.mit.edu	37	12	39734129	39734129	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
FAM113B	91523	broad.mit.edu	37	12	47628998	47628998	+	Frame_Shift_Del	DEL	G	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
KRT2	3849	broad.mit.edu	37	12	53044122	53044124	+	Splice_Site	DEL	CTT	-	-	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	---	---	---	---						.
APOF	319	broad.mit.edu	37	12	56755285	56755285	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
MBD6	114785	broad.mit.edu	37	12	57919175	57919175	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
HELB	92797	broad.mit.edu	37	12	66731962	66731962	+	RNA	DEL	A	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
ZFC3H1	196441	broad.mit.edu	37	12	72038781	72038781	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
C12orf63	374467	broad.mit.edu	37	12	97159024	97159024	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
CLIP1	6249	broad.mit.edu	37	12	122812630	122812631	+	Frame_Shift_Ins	INS	-	T	T	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	---	---	---	---						.
NBEA	26960	broad.mit.edu	37	13	36125104	36125104	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
AKAP11	11215	broad.mit.edu	37	13	42873774	42873774	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
EDNRB	1910	broad.mit.edu	37	13	78475267	78475267	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
HECTD1	25831	broad.mit.edu	37	14	31576889	31576891	+	In_Frame_Del	DEL	CTT	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
GNPNAT1	64841	broad.mit.edu	37	14	53250196	53250196	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
SPTB	6710	broad.mit.edu	37	14	65260168	65260170	+	In_Frame_Del	DEL	TTC	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
AQR	9716	broad.mit.edu	37	15	35224524	35224524	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
RPAP1	26015	broad.mit.edu	37	15	41815100	41815101	+	Frame_Shift_Ins	INS	-	G	G	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	---	---	---	---						.
PLA2G4E	123745	broad.mit.edu	37	15	42275979	42275981	+	In_Frame_Del	DEL	CTT	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
SEPT12	124404	broad.mit.edu	37	16	4827851	4827851	+	Frame_Shift_Del	DEL	G	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
KCTD19	146212	broad.mit.edu	37	16	67325658	67325658	+	Frame_Shift_Del	DEL	G	-	-			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr16:67325658delG	uc002esu.2	-	13	2352	c.2301delC	c.(2299-2301)CCCfs	p.P767fs	KCTD19_uc002est.2_Frame_Shift_Del_p.P539fs|KCTD19_uc010vjj.1_Frame_Shift_Del_p.P510fs	NM_001100915	NP_001094385	Q17RG1	KCD19_HUMAN	potassium channel tetramerisation domain	767						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)		TGCCCACCACGGGGGGGTGAG	0.577													31	71	---	---	---	---						.
ZFHX3	463	broad.mit.edu	37	16	72991671	72991671	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
C16orf74	404550	broad.mit.edu	37	16	85743813	85743813	+	Frame_Shift_Del	DEL	G	-	-	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	---	---	---	---						.
CENPBD1	92806	broad.mit.edu	37	16	90038141	90038141	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
USP6	9098	broad.mit.edu	37	17	5049390	5049391	+	Frame_Shift_Ins	INS	-	A	A			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
PHF23	79142	broad.mit.edu	37	17	7139443	7139443	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
GALK1	2584	broad.mit.edu	37	17	73759466	73759466	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
ANKRD12	23253	broad.mit.edu	37	18	9256062	9256062	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
TTC39C	125488	broad.mit.edu	37	18	21660762	21660762	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
DSG3	1830	broad.mit.edu	37	18	29044269	29044269	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
KLHL14	57565	broad.mit.edu	37	18	30349862	30349862	+	Frame_Shift_Del	DEL	G	-	-	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	---	---	---	---						.
FHOD3	80206	broad.mit.edu	37	18	34205516	34205516	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
NEDD4L	23327	broad.mit.edu	37	18	55990515	55990515	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
SF3A2	8175	broad.mit.edu	37	19	2248140	2248140	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
OR7E24	26648	broad.mit.edu	37	19	9362217	9362217	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr19:9362217delT	uc002mlb.1	+	1	498	c.498delT	c.(496-498)TCTfs	p.S166fs		NM_001079935	NP_001073404	Q6IFN5	O7E24_HUMAN	olfactory receptor, family 7, subfamily E,	166	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TCTTGTTGTCTTTTTTTATTA	0.443													24	54	---	---	---	---						.
SIX5	147912	broad.mit.edu	37	19	46269107	46269107	+	Frame_Shift_Del	DEL	G	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
GLTSCR1	29998	broad.mit.edu	37	19	48183494	48183495	+	Frame_Shift_Ins	INS	-	G	G			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
SCAF1	58506	broad.mit.edu	37	19	50155693	50155694	+	Frame_Shift_Ins	INS	-	G	G			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
NLRP12	91662	broad.mit.edu	37	19	54310804	54310804	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
ZNF749	388567	broad.mit.edu	37	19	57955159	57955160	+	Frame_Shift_Ins	INS	-	A	A			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
ZNF544	27300	broad.mit.edu	37	19	58772421	58772424	+	Frame_Shift_Del	DEL	TGTT	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
SPDYA	245711	broad.mit.edu	37	2	29063182	29063182	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
AUP1	550	broad.mit.edu	37	2	74754443	74754443	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
LRRTM1	347730	broad.mit.edu	37	2	80529785	80529785	+	Frame_Shift_Del	DEL	G	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
NCAPH	23397	broad.mit.edu	37	2	97024802	97024802	+	Frame_Shift_Del	DEL	G	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
ANAPC1	64682	broad.mit.edu	37	2	112636490	112636492	+	In_Frame_Del	DEL	TCA	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
PTPN4	5775	broad.mit.edu	37	2	120677773	120677773	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
TANC1	85461	broad.mit.edu	37	2	159954333	159954334	+	Frame_Shift_Ins	INS	-	A	A			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
SLC4A10	57282	broad.mit.edu	37	2	162760516	162760516	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
TTN	7273	broad.mit.edu	37	2	179529600	179529600	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
RBM44	375316	broad.mit.edu	37	2	238725990	238725990	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
HDAC4	9759	broad.mit.edu	37	2	240002823	240002823	+	Frame_Shift_Del	DEL	G	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
HDLBP	3069	broad.mit.edu	37	2	242178074	242178075	+	Frame_Shift_Del	DEL	CT	-	-			TCGA-BR-4361-01A-01D-1158-08	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	0.520													136	293	---	---	---	---						.
SMOX	54498	broad.mit.edu	37	20	4163027	4163028	+	Frame_Shift_Ins	INS	-	G	G	rs145014650	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.chr20:4163027_4163028insG	uc002wkm.1	+	5	1102_1103	c.901_902insG	c.(901-903)CGGfs	p.R301fs	SMOX_uc002wkk.1_Intron|SMOX_uc002wkl.1_Intron|SMOX_uc002wkn.1_Intron|SMOX_uc002wkp.2_Frame_Shift_Ins_p.R301fs|SMOX_uc010zqo.1_Intron|SMOX_uc002wko.1_Frame_Shift_Ins_p.R301fs	NM_175839	NP_787033	Q9NWM0	SMOX_HUMAN	spermine oxidase isoform 1	301					polyamine biosynthetic process|xenobiotic metabolic process	cytosol|nucleus	polyamine oxidase activity			breast(1)	1					Spermine(DB00127)	AGAGGAGCCCCGGGGGGGCAGG	0.673													23	37	---	---	---	---						.
RBBP9	10741	broad.mit.edu	37	20	18476496	18476496	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
KCNK15	60598	broad.mit.edu	37	20	43379277	43379278	+	Frame_Shift_Ins	INS	-	C	C			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
PMEPA1	56937	broad.mit.edu	37	20	56227177	56227178	+	Frame_Shift_Del	DEL	TG	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
MIR296	407022	broad.mit.edu	37	20	57392726	57392726	+	RNA	DEL	G	-	-			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr20:57392726delG	hsa-mir-296|MI0000747	-			c.24delG			uc002xzr.1_RNA																	0						ACAGGATTGAGGGGGGGCCCT	0.587													21	42	---	---	---	---						.
CLIC6	54102	broad.mit.edu	37	21	36081075	36081076	+	Frame_Shift_Ins	INS	-	A	A			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
DOPEY2	9980	broad.mit.edu	37	21	37650357	37650358	+	Frame_Shift_Ins	INS	-	T	T			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
DERL3	91319	broad.mit.edu	37	22	24180552	24180552	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
CSNK1E	1454	broad.mit.edu	37	22	38699188	38699188	+	Frame_Shift_Del	DEL	G	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
OR5H1	26341	broad.mit.edu	37	3	97852456	97852456	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
ADCY5	111	broad.mit.edu	37	3	123167215	123167215	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
PIK3R4	30849	broad.mit.edu	37	3	130454824	130454824	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
TOPBP1	11073	broad.mit.edu	37	3	133335731	133335731	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
CCDC39	339829	broad.mit.edu	37	3	180377245	180377246	+	Frame_Shift_Del	DEL	CA	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
HRG	3273	broad.mit.edu	37	3	186395646	186395646	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
PPP1R2	5504	broad.mit.edu	37	3	195245976	195245976	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
SH3BP2	6452	broad.mit.edu	37	4	2831652	2831652	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
NCAPG	64151	broad.mit.edu	37	4	17844998	17844999	+	Frame_Shift_Ins	INS	-	A	A			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr4:17844998_17844999insA	uc003gpp.2	+	21	3174_3175	c.2998_2999insA	c.(2998-3000)GAAfs	p.E1000fs	NCAPG_uc011bxj.1_Frame_Shift_Ins_p.E509fs|LCORL_uc003gpq.2_3'UTR|LCORL_uc011bxk.1_3'UTR	NM_022346	NP_071741	Q9BPX3	CND3_HUMAN	chromosome condensation protein G	1000					cell division|mitotic chromosome condensation	condensin complex|cytoplasm|nucleus	protein binding			large_intestine(1)	1				STAD - Stomach adenocarcinoma(129;0.18)		CGCAGCACTAGAAAAAAGTAAA	0.366													53	108	---	---	---	---						.
SLIT2	9353	broad.mit.edu	37	4	20469438	20469438	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
SULT1B1	27284	broad.mit.edu	37	4	70615468	70615470	+	In_Frame_Del	DEL	GAA	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
PPEF2	5470	broad.mit.edu	37	4	76793305	76793305	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
PPID	5481	broad.mit.edu	37	4	159636518	159636518	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
KIAA0947	23379	broad.mit.edu	37	5	5461230	5461231	+	Frame_Shift_Ins	INS	-	A	A			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
C5orf43	643155	broad.mit.edu	37	5	60455819	60455819	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
IPO11	51194	broad.mit.edu	37	5	61847115	61847115	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
Unknown	0	broad.mit.edu	37	5	68766010	68766011	+	RNA	DEL	TT	-	-			TCGA-BR-4361-01A-01D-1158-08	TCGA-BR-4361-11A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	f77aa205-e68f-4aaf-9d3c-29c8f821aa26	53c89408-014c-4e0a-b04d-497c1ce75a51	g.chr5:68766010_68766011delTT	uc003jwt.1	+	1		c.331_332delTT								full-length cDNA clone CS0DJ015YI13 of T cells (Jurkat cell line) Cot 10-normalized of Homo sapiens (human).																		CAATAAACACtttttttttttt	0.203													7	5	---	---	---	---						.
PRRC1	133619	broad.mit.edu	37	5	126860489	126860489	+	Frame_Shift_Del	DEL	C	-	-	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	---	---	---	---						.
CHSY3	337876	broad.mit.edu	37	5	129241153	129241153	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
DPYSL3	1809	broad.mit.edu	37	5	146775201	146775201	+	Frame_Shift_Del	DEL	G	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
WWC1	23286	broad.mit.edu	37	5	167850888	167850888	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
DSP	1832	broad.mit.edu	37	6	7580103	7580103	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
KIAA1949	170954	broad.mit.edu	37	6	30652406	30652406	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
GPSM3	63940	broad.mit.edu	37	6	32160025	32160026	+	Frame_Shift_Ins	INS	-	A	A			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
TAP2	6891	broad.mit.edu	37	6	32805788	32805788	+	Frame_Shift_Del	DEL	G	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
GPR115	221393	broad.mit.edu	37	6	47682443	47682443	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
GRM1	2911	broad.mit.edu	37	6	146755183	146755183	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
GTF2IRD2B	389524	broad.mit.edu	37	7	74564312	74564312	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4361-01A-01D-1158-08	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	0.000													5	3	---	---	---	---						.
RUNDC3B	154661	broad.mit.edu	37	7	87258157	87258157	+	Frame_Shift_Del	DEL	G	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
XRCC2	7516	broad.mit.edu	37	7	152345769	152345769	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
RRS1	23212	broad.mit.edu	37	8	67341501	67341501	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
FAM166B	730112	broad.mit.edu	37	9	35562439	35562439	+	Frame_Shift_Del	DEL	G	-	-	rs77185976	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.chr9:35562439delG	uc010mkr.2	-	5	748	c.677delC	c.(676-678)CCAfs	p.P226fs	FAM166B_uc011lov.1_Frame_Shift_Del_p.P214fs|FAM166B_uc011low.1_Frame_Shift_Del_p.H211fs|FAM166B_uc003zwy.2_Frame_Shift_Del_p.P203fs	NM_001164310	NP_001157782	A8MTA8	F166B_HUMAN	hypothetical protein LOC730112 isoform 1	226											0						TCTGGGAAGTGGGGGGAGATG	0.582													6	8	---	---	---	---						.
OFD1	8481	broad.mit.edu	37	X	13778758	13778758	+	Frame_Shift_Del	DEL	G	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
BCOR	54880	broad.mit.edu	37	X	39923086	39923087	+	Frame_Shift_Ins	INS	-	T	T			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
UBQLN2	29978	broad.mit.edu	37	X	56591874	56591874	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4361-01A-01D-1158-08	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	---	---	---	---						.
