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
NOC2L	26155	broad.mit.edu	37	1	883877	883877	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:883877G>A	uc001abz.3	-	13	1609	c.1550C>T	c.(1549-1551)GCG>GTG	p.A517V	NOC2L_uc001aby.3_Missense_Mutation_p.A314V|NOC2L_uc009vjq.2_Missense_Mutation_p.A517V	NM_015658	NP_056473	Q9Y3T9	NOC2L_HUMAN	nucleolar complex associated 2 homolog	517						nucleolus	protein binding			ovary(1)|skin(1)	2	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00459)|Epithelial(90;1.86e-38)|OV - Ovarian serous cystadenocarcinoma(86;6.08e-23)|Colorectal(212;0.000161)|COAD - Colon adenocarcinoma(227;0.000194)|BRCA - Breast invasive adenocarcinoma(365;0.000475)|Kidney(185;0.00231)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0344)|Lung(427;0.2)		CACCCGGTACGCCTTCTCCTG	0.632													5	22					0	0	0.000602	0	0	
KLHL17	339451	broad.mit.edu	37	1	897043	897043	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:897043G>A	uc001aca.1	+	3	509	c.402G>A	c.(400-402)ACG>ACA	p.T134T	NOC2L_uc001abz.3_5'Flank|NOC2L_uc009vjq.2_5'Flank|NOC2L_uc009vjr.1_5'Flank|KLHL17_uc001acb.1_Silent_p.T10T|KLHL17_uc010nya.1_Silent_p.T10T|KLHL17_uc001acc.1_5'Flank|KLHL17_uc010nyb.1_5'Flank	NM_198317	NP_938073	Q6TDP4	KLH17_HUMAN	kelch-like 17	134	BTB.				actin cytoskeleton organization	actin cytoskeleton|cell junction|postsynaptic density|postsynaptic membrane	protein complex scaffold				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00459)|Epithelial(90;1.52e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.59e-23)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|BRCA - Breast invasive adenocarcinoma(365;0.000469)|Kidney(185;0.00227)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		CCCACGTGACGCTGCACGACA	0.667													4	11					0	0	0.000602	0	0	
NADK	65220	broad.mit.edu	37	1	1693452	1693452	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:1693452G>A	uc009vkw.2	-	3	323	c.202C>T	c.(202-204)CCA>TCA	p.P68S	NADK_uc001aic.2_Missense_Mutation_p.P68S|NADK_uc001aid.3_Missense_Mutation_p.P68S|NADK_uc001aie.2_Missense_Mutation_p.P68S|NADK_uc009vkx.1_5'UTR	NM_023018	NP_075394	O95544	NADK_HUMAN	NAD kinase	68					ATP metabolic process|NAD metabolic process|water-soluble vitamin metabolic process	cytosol	ATP binding|metal ion binding|NAD+ kinase activity|protein binding				0	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;5.61e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Medulloblastoma(700;0.123)|Lung SC(97;0.128)		Epithelial(90;8.75e-37)|OV - Ovarian serous cystadenocarcinoma(86;2.33e-23)|GBM - Glioblastoma multiforme(42;1.35e-07)|Colorectal(212;0.000203)|COAD - Colon adenocarcinoma(227;0.000225)|Kidney(185;0.00265)|STAD - Stomach adenocarcinoma(132;0.00655)|BRCA - Breast invasive adenocarcinoma(365;0.00855)|KIRC - Kidney renal clear cell carcinoma(229;0.0382)|Lung(427;0.207)		ACCGGGCATGGCCCATGAAGA	0.602													4	28					0	0	0.001168	0	0	
MMEL1	79258	broad.mit.edu	37	1	2527522	2527522	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:2527522G>A	uc001ajy.2	-	15	1640	c.1426C>T	c.(1426-1428)CGG>TGG	p.R476W	MMEL1_uc009vlg.1_RNA	NM_033467	NP_258428	Q495T6	MMEL1_HUMAN	membrane metallo-endopeptidase-like 1	476	Lumenal (Potential).				proteolysis	extracellular region|integral to membrane|intracellular membrane-bounded organelle	metal ion binding|metalloendopeptidase activity				0	all_cancers(77;0.000233)|all_epithelial(69;8.55e-05)|all_lung(157;0.0228)|Lung NSC(156;0.0402)|Ovarian(185;0.0634)	all_epithelial(116;1.03e-20)|all_lung(118;5.15e-09)|Lung NSC(185;9.02e-07)|Breast(487;0.00147)|Renal(390;0.00183)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.123)		Epithelial(90;4.31e-38)|OV - Ovarian serous cystadenocarcinoma(86;8.52e-23)|GBM - Glioblastoma multiforme(42;1.49e-08)|Colorectal(212;4.79e-05)|COAD - Colon adenocarcinoma(227;0.000213)|Kidney(185;0.000371)|BRCA - Breast invasive adenocarcinoma(365;0.00219)|KIRC - Kidney renal clear cell carcinoma(229;0.00571)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.131)		AACACTGTCCGCACCTTGTCA	0.597													32	84					0	0	0.007835	0	0	
WDR8	49856	broad.mit.edu	37	1	3551635	3551635	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:3551635G>A	uc001ako.2	-	8	850	c.742C>T	c.(742-744)CGC>TGC	p.R248C	WDR8_uc001akn.3_Missense_Mutation_p.R248C|WDR8_uc010nzi.1_3'UTR	NM_017818	NP_060288	Q9P2S5	WRP73_HUMAN	WD repeat domain 8	248	WD 4.					centrosome	protein binding				0	all_cancers(77;0.0128)|all_epithelial(69;0.00526)|Ovarian(185;0.0634)|Lung NSC(156;0.162)|all_lung(157;0.172)	all_epithelial(116;7.37e-22)|all_lung(118;8.23e-09)|Lung NSC(185;3.55e-06)|Breast(487;0.000659)|Renal(390;0.00121)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Lung SC(97;0.0262)|Ovarian(437;0.0308)|Medulloblastoma(700;0.211)		Epithelial(90;4.11e-38)|OV - Ovarian serous cystadenocarcinoma(86;4.16e-22)|GBM - Glioblastoma multiforme(42;1.05e-14)|Colorectal(212;1.19e-05)|BRCA - Breast invasive adenocarcinoma(365;2.67e-05)|COAD - Colon adenocarcinoma(227;5.82e-05)|Kidney(185;0.000364)|KIRC - Kidney renal clear cell carcinoma(229;0.00223)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.203)		TTAAGGATGCGCACCTGAGGA	0.547													8	114					0	0	0.003080	0	0	
TP73	7161	broad.mit.edu	37	1	3624161	3624161	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:3624161G>A	uc001akp.2	+	4	345	c.235G>A	c.(235-237)GCG>ACG	p.A79T	TP73_uc001akq.2_Missense_Mutation_p.A79T|TP73_uc010nzj.1_Missense_Mutation_p.A30T|TP73_uc001akr.2_Missense_Mutation_p.A30T|TP73_uc009vlk.1_Missense_Mutation_p.A30T|TP73_uc001aks.2_Missense_Mutation_p.A30T|TP73_uc009vll.2_Missense_Mutation_p.A8T|TP73_uc010nzk.1_Missense_Mutation_p.A8T	NM_005427	NP_005418	O15350	P73_HUMAN	tumor protein p73 isoform a	79					cellular response to UV|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|mismatch repair|mitotic cell cycle G1/S transition DNA damage checkpoint|negative regulation of JUN kinase activity|negative regulation of neuron apoptosis|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|protein tetramerization|response to gamma radiation|response to X-ray	chromatin|cytosol|transcription factor complex	chromatin binding|damaged DNA binding|double-stranded DNA binding|metal ion binding|p53 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|transcription repressor activity			ovary(1)|lung(1)	2	all_cancers(77;0.0395)|Ovarian(185;0.0634)|Lung NSC(156;0.188)|all_lung(157;0.198)	all_epithelial(116;7.42e-17)|all_lung(118;1.86e-06)|Lung NSC(185;0.000163)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Lung SC(97;0.109)|Ovarian(437;0.127)		Epithelial(90;5.57e-38)|OV - Ovarian serous cystadenocarcinoma(86;1.87e-22)|GBM - Glioblastoma multiforme(42;5.72e-16)|Colorectal(212;2.22e-05)|COAD - Colon adenocarcinoma(227;8.48e-05)|Kidney(185;0.000539)|BRCA - Breast invasive adenocarcinoma(365;0.000868)|STAD - Stomach adenocarcinoma(132;0.0072)|KIRC - Kidney renal clear cell carcinoma(229;0.00751)|Lung(427;0.226)		GAGCAGCCGCGCGGCCTCGGC	0.677													6	32					0	0	0.000978	0	0	
KIAA0562	9731	broad.mit.edu	37	1	3756275	3756275	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:3756275G>A	uc001aky.2	-	7	991	c.632C>T	c.(631-633)GCA>GTA	p.A211V	KIAA0562_uc010nzm.1_RNA|KIAA0562_uc001akz.2_Missense_Mutation_p.A211V	NM_014704	NP_055519	O60308	CE104_HUMAN	glycine-, glutamate-,	211	Potential.					centriole	binding				0	all_cancers(77;0.0395)|Ovarian(185;0.0634)|all_lung(157;0.222)|Lung NSC(156;0.227)	all_epithelial(116;3.96e-21)|all_lung(118;2.74e-08)|Lung NSC(185;6.4e-06)|Breast(487;0.00066)|Renal(390;0.00121)|Hepatocellular(190;0.00335)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.031)|Lung SC(97;0.0548)|Medulloblastoma(700;0.212)		Epithelial(90;6.85e-39)|OV - Ovarian serous cystadenocarcinoma(86;1.59e-22)|GBM - Glioblastoma multiforme(42;3.16e-16)|Colorectal(212;2.01e-05)|COAD - Colon adenocarcinoma(227;7.99e-05)|BRCA - Breast invasive adenocarcinoma(365;0.000389)|Kidney(185;0.000513)|STAD - Stomach adenocarcinoma(132;0.00709)|KIRC - Kidney renal clear cell carcinoma(229;0.00714)|Lung(427;0.137)		TATGATCTGTGCAACTTCTGG	0.358													5	114					0	0	0.000602	0	0	
KIAA0562	9731	broad.mit.edu	37	1	3768869	3768869	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:3768869G>A	uc001aky.2	-	2	462	c.103C>T	c.(103-105)CGG>TGG	p.R35W	KIAA0562_uc010nzm.1_RNA|KIAA0562_uc001akz.2_Missense_Mutation_p.R35W	NM_014704	NP_055519	O60308	CE104_HUMAN	glycine-, glutamate-,	35						centriole	binding				0	all_cancers(77;0.0395)|Ovarian(185;0.0634)|all_lung(157;0.222)|Lung NSC(156;0.227)	all_epithelial(116;3.96e-21)|all_lung(118;2.74e-08)|Lung NSC(185;6.4e-06)|Breast(487;0.00066)|Renal(390;0.00121)|Hepatocellular(190;0.00335)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.031)|Lung SC(97;0.0548)|Medulloblastoma(700;0.212)		Epithelial(90;6.85e-39)|OV - Ovarian serous cystadenocarcinoma(86;1.59e-22)|GBM - Glioblastoma multiforme(42;3.16e-16)|Colorectal(212;2.01e-05)|COAD - Colon adenocarcinoma(227;7.99e-05)|BRCA - Breast invasive adenocarcinoma(365;0.000389)|Kidney(185;0.000513)|STAD - Stomach adenocarcinoma(132;0.00709)|KIRC - Kidney renal clear cell carcinoma(229;0.00714)|Lung(427;0.137)		CTAGGTGACCGCCACCCACTG	0.622													5	14					0	0	0.001168	0	0	
RNF207	388591	broad.mit.edu	37	1	6278394	6278394	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:6278394G>A	uc001amg.2	+	17	1872	c.1698G>A	c.(1696-1698)ACG>ACA	p.T566T	RNF207_uc010nzp.1_RNA	NM_207396	NP_997279	Q6ZRF8	RN207_HUMAN	ring finger protein 207	566						intracellular	zinc ion binding				0	Ovarian(185;0.0634)	all_cancers(23;1.22e-38)|all_epithelial(116;4.25e-22)|all_lung(118;7.95e-08)|Lung NSC(185;1.6e-06)|all_neural(13;3.18e-06)|all_hematologic(16;8.99e-06)|Acute lymphoblastic leukemia(12;0.000365)|Breast(487;0.000496)|Renal(390;0.0007)|Colorectal(325;0.00104)|Glioma(11;0.00203)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0392)|Medulloblastoma(700;0.211)		Epithelial(90;4.84e-38)|GBM - Glioblastoma multiforme(13;5.77e-32)|OV - Ovarian serous cystadenocarcinoma(86;2.88e-19)|Colorectal(212;6.9e-08)|COAD - Colon adenocarcinoma(227;8.13e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000896)|BRCA - Breast invasive adenocarcinoma(365;0.00108)|STAD - Stomach adenocarcinoma(132;0.00311)|READ - Rectum adenocarcinoma(331;0.0642)|Lung(427;0.182)		TACAGAACACGCACGACGACA	0.592													11	31					0	0	0.000978	0	0	
GPR153	387509	broad.mit.edu	37	1	6311422	6311422	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:6311422C>A	uc001amp.1	-	4	1215	c.955G>T	c.(955-957)GCC>TCC	p.A319S	GPR153_uc001amo.1_5'Flank	NM_207370	NP_997253	Q6NV75	GP153_HUMAN	G protein-coupled receptor 153	319	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0	Ovarian(185;0.0634)	all_cancers(23;8.07e-33)|all_epithelial(116;4.45e-18)|all_lung(118;1.09e-06)|all_neural(13;3.68e-06)|Lung NSC(185;1.52e-05)|all_hematologic(16;2.39e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00475)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;1.91e-37)|GBM - Glioblastoma multiforme(13;4.87e-29)|OV - Ovarian serous cystadenocarcinoma(86;3.03e-19)|Colorectal(212;1.33e-07)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(365;0.00109)|STAD - Stomach adenocarcinoma(132;0.00313)|READ - Rectum adenocarcinoma(331;0.0642)|Lung(427;0.246)		TCGTCGTTGGCCATGAGGGCC	0.637													17	34					1.28384e-07	1.3685e-07	0.001882	1	0	
ZBTB48	3104	broad.mit.edu	37	1	6642155	6642155	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:6642155G>A	uc009vmc.1	+	3	851	c.728G>A	c.(727-729)GGC>GAC	p.G243D	ZBTB48_uc001anx.2_Missense_Mutation_p.G243D|ZBTB48_uc009vmd.1_Missense_Mutation_p.G243D	NM_005341	NP_005332	P10074	ZBT48_HUMAN	zinc finger and BTB domain containing 48	243						cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;7.39e-28)|all_epithelial(116;1.76e-17)|all_lung(118;2.27e-05)|Lung NSC(185;9.97e-05)|Renal(390;0.00188)|Breast(487;0.00289)|Colorectal(325;0.00342)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.156)		Colorectal(212;1.35e-07)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(304;0.00109)|STAD - Stomach adenocarcinoma(132;0.017)|READ - Rectum adenocarcinoma(331;0.0642)		GATGGGGATGGCGATTACATG	0.567													14	35					0	0	0.002450	0	0	
PHF13	148479	broad.mit.edu	37	1	6680350	6680350	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:6680350G>A	uc001aob.3	+	3	1000	c.629G>A	c.(628-630)CGA>CAA	p.R210Q		NM_153812	NP_722519	Q86YI8	PHF13_HUMAN	PHD finger protein 13	210					cell division|chromatin modification|mitotic chromosome condensation	nucleoplasm	chromatin binding|methylated histone residue binding|zinc ion binding				0	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;1.46e-33)|all_epithelial(116;9.26e-22)|all_lung(118;7.57e-07)|Lung NSC(185;4.26e-06)|Breast(487;0.000353)|Renal(390;0.0007)|Colorectal(325;0.00104)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0443)		Colorectal(212;1.19e-07)|COAD - Colon adenocarcinoma(227;1.3e-05)|Kidney(185;4.88e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000501)|KIRC - Kidney renal clear cell carcinoma(229;0.000871)|STAD - Stomach adenocarcinoma(132;0.0165)|READ - Rectum adenocarcinoma(331;0.0642)		GTGGTGTTCCGAGATGAGGAC	0.507													4	18					0	0	0.009096	0	0	
CAMTA1	23261	broad.mit.edu	37	1	7700554	7700554	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:7700554A>C	uc001aoi.2	+	7	812	c.605A>C	c.(604-606)GAC>GCC	p.D202A		NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	202					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		ATCAACACCGACAAGAAGGAG	0.627													19	38					0	0	0.003954	0	0	
CAMTA1	23261	broad.mit.edu	37	1	7797322	7797322	+	Missense_Mutation	SNP	C	T	T	rs149702154		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:7797322C>T	uc001aoi.2	+	15	3557	c.3350C>T	c.(3349-3351)GCG>GTG	p.A1117V	CAMTA1_uc010nzv.1_Missense_Mutation_p.A204V|CAMTA1_uc001aok.3_Missense_Mutation_p.A160V|CAMTA1_uc001aoj.2_Missense_Mutation_p.A73V	NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	1117	ANK 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		TAGATGTGGGCGTGTGCCCTA	0.547													5	88					0	0	0.001984	0	0	
TNFRSF9	3604	broad.mit.edu	37	1	7993308	7993308	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:7993308G>A	uc001aot.2	-	7	721	c.593C>T	c.(592-594)GCG>GTG	p.A198V		NM_001561	NP_001552	Q07011	TNR9_HUMAN	tumor necrosis factor receptor superfamily,	198	Helical; (Potential).				induction of apoptosis|negative regulation of cell proliferation	integral to plasma membrane	binding|receptor activity			large_intestine(1)|lung(1)|ovary(1)|skin(1)	4	Ovarian(185;0.0634)|all_lung(157;0.151)	all_epithelial(116;9.63e-21)|all_lung(118;1.29e-06)|Lung NSC(185;7.5e-06)|Renal(390;0.000147)|Breast(348;0.000625)|Colorectal(325;0.000959)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;2.93e-71)|GBM - Glioblastoma multiforme(8;3.72e-37)|Colorectal(212;7e-08)|COAD - Colon adenocarcinoma(227;7.71e-06)|Kidney(185;5.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000419)|KIRC - Kidney renal clear cell carcinoma(229;0.000979)|STAD - Stomach adenocarcinoma(132;0.00103)|READ - Rectum adenocarcinoma(331;0.0649)		GAAGAGCAACGCAGTCGACGT	0.448													4	32					0	0	0.000602	0	0	
RERE	473	broad.mit.edu	37	1	8425885	8425885	+	Silent	SNP	C	T	T	rs139440766		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:8425885C>T	uc001ape.2	-	14	2244	c.1434G>A	c.(1432-1434)CCG>CCA	p.P478P	RERE_uc001apf.2_Silent_p.P478P|RERE_uc010nzx.1_Silent_p.P210P|RERE_uc001apd.2_5'UTR	NM_012102	NP_036234	Q9P2R6	RERE_HUMAN	atrophin-1 like protein isoform a	478					multicellular organismal development|NLS-bearing substrate import into nucleus	mitochondrion	poly-glutamine tract binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(185;0.0661)	all_epithelial(116;1.17e-21)|all_lung(118;1.4e-06)|Lung NSC(185;3.06e-06)|Renal(390;0.000147)|Breast(348;0.000206)|Colorectal(325;0.00187)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;9.64e-67)|GBM - Glioblastoma multiforme(8;9.89e-33)|Colorectal(212;1.45e-07)|COAD - Colon adenocarcinoma(227;3.42e-05)|Kidney(185;6e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000533)|KIRC - Kidney renal clear cell carcinoma(229;0.00106)|STAD - Stomach adenocarcinoma(132;0.00118)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.195)		ATTCACTGGACGGGGGTCTGG	0.637													14	28					0	0	0.002450	0	0	
CA6	765	broad.mit.edu	37	1	9005999	9005999	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:9005999G>A	uc001apm.2	+	1	78	c.54G>A	c.(52-54)CAG>CAA	p.Q18Q	CA6_uc009vmn.2_Silent_p.Q18Q	NM_001215	NP_001206	P23280	CAH6_HUMAN	carbonic anhydrase VI precursor	18					one-carbon metabolic process	extracellular region	carbonate dehydratase activity|zinc ion binding			ovary(2)	2	Ovarian(185;0.112)|all_lung(157;0.143)	all_epithelial(116;1.02e-19)|all_lung(118;3.6e-06)|Lung NSC(185;7.94e-06)|Renal(390;0.000147)|Breast(348;0.00123)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.9e-07)|COAD - Colon adenocarcinoma(227;8.28e-05)|Kidney(185;0.000268)|KIRC - Kidney renal clear cell carcinoma(229;0.000971)|STAD - Stomach adenocarcinoma(132;0.00184)|BRCA - Breast invasive adenocarcinoma(304;0.00192)|READ - Rectum adenocarcinoma(331;0.0649)		GCCAGGCCCAGCATGTGTCTG	0.547													6	33					0	0	0.001984	0	0	
SLC2A7	155184	broad.mit.edu	37	1	9063462	9063462	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:9063462C>T	uc009vmo.1	-	12	1436	c.1436G>A	c.(1435-1437)CGC>CAC	p.R479H		NM_207420	NP_997303	Q6PXP3	GTR7_HUMAN	intestinal facilitative glucose transporter 7	479	Cytoplasmic (Potential).					integral to membrane|plasma membrane	sugar transmembrane transporter activity				0	Ovarian(185;0.112)|all_lung(157;0.185)	all_epithelial(116;1.34e-15)|all_lung(118;9.46e-05)|Lung NSC(185;0.000172)|Renal(390;0.000469)|Colorectal(325;0.0062)|Breast(348;0.00715)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.04e-07)|COAD - Colon adenocarcinoma(227;7.66e-05)|Kidney(185;0.000249)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|STAD - Stomach adenocarcinoma(132;0.00177)|BRCA - Breast invasive adenocarcinoma(304;0.00185)|READ - Rectum adenocarcinoma(331;0.0642)		GGCAAAAATGCGGTTTATCTC	0.473													10	45					0	0	0.008291	0	0	
SLC2A5	6518	broad.mit.edu	37	1	9097693	9097693	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:9097693C>T	uc001apo.2	-	12	1750	c.1458G>A	c.(1456-1458)CCG>CCA	p.P486P	SLC2A5_uc010nzy.1_Silent_p.P427P|SLC2A5_uc010nzz.1_Silent_p.P371P|SLC2A5_uc010oaa.1_Silent_p.P442P|SLC2A5_uc010oab.1_Silent_p.P486P	NM_003039	NP_003030	P22732	GTR5_HUMAN	solute carrier family 2 (facilitated	486	Cytoplasmic (Potential).				carbohydrate metabolic process	integral to membrane|plasma membrane	fructose transmembrane transporter activity|glucose transmembrane transporter activity			pancreas(2)|ovary(1)	3	Ovarian(185;0.112)|all_lung(157;0.185)	all_epithelial(116;1.34e-15)|all_lung(118;9.46e-05)|Lung NSC(185;0.000172)|Renal(390;0.000469)|Colorectal(325;0.0062)|Breast(348;0.00715)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;7.78e-07)|COAD - Colon adenocarcinoma(227;8.83e-05)|Kidney(185;0.000286)|KIRC - Kidney renal clear cell carcinoma(229;0.00103)|STAD - Stomach adenocarcinoma(132;0.0019)|BRCA - Breast invasive adenocarcinoma(304;0.00199)|READ - Rectum adenocarcinoma(331;0.0649)		CCTCCTTTTCCGGGTACACTT	0.507													12	84					0	0	0.001368	0	0	
H6PD	9563	broad.mit.edu	37	1	9324910	9324910	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:9324910C>T	uc001apt.2	+	5	2631	c.2358C>T	c.(2356-2358)TAC>TAT	p.Y786Y		NM_004285	NP_004276	O95479	G6PE_HUMAN	hexose-6-phosphate dehydrogenase precursor	786	6-phosphogluconolactonase.					endoplasmic reticulum lumen	6-phosphogluconolactonase activity|glucose 1-dehydrogenase|glucose-6-phosphate dehydrogenase activity|NADP binding				0	all_lung(157;0.23)	all_epithelial(116;1.28e-19)|all_lung(118;5.22e-06)|Lung NSC(185;1.98e-05)|Renal(390;0.000147)|Breast(348;0.00109)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;1.88e-07)|COAD - Colon adenocarcinoma(227;7.47e-05)|Kidney(185;0.000244)|KIRC - Kidney renal clear cell carcinoma(229;0.000905)|STAD - Stomach adenocarcinoma(132;0.00176)|BRCA - Breast invasive adenocarcinoma(304;0.00183)|READ - Rectum adenocarcinoma(331;0.0419)	NADH(DB00157)	ACATGGACTACGACGCCTTCC	0.667													5	16					0	0	0.000602	0	0	
UBE4B	10277	broad.mit.edu	37	1	10155571	10155571	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:10155571G>A	uc001aqs.3	+	3	977	c.264G>A	c.(262-264)TCG>TCA	p.S88S	UBE4B_uc001aqr.3_Silent_p.S88S|UBE4B_uc010oai.1_RNA|UBE4B_uc010oaj.1_5'UTR	NM_001105562	NP_001099032	O95155	UBE4B_HUMAN	ubiquitination factor E4B isoform 1	88					apoptosis|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to UV	cytoplasm|ubiquitin ligase complex	enzyme binding			ovary(2)|skin(2)	4		all_lung(284;1.13e-05)|Lung NSC(185;1.74e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0268)|Colorectal(212;1.42e-07)|COAD - Colon adenocarcinoma(227;2.77e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000435)|Kidney(185;0.000482)|KIRC - Kidney renal clear cell carcinoma(229;0.00164)|STAD - Stomach adenocarcinoma(132;0.0117)|READ - Rectum adenocarcinoma(331;0.046)		TCAGCAGCTCGCCCTCTAATA	0.468													32	62					0	0	0.003271	0	0	
UBE4B	10277	broad.mit.edu	37	1	10197233	10197233	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:10197233G>A	uc001aqs.3	+	17	3046	c.2333G>A	c.(2332-2334)CGC>CAC	p.R778H	UBE4B_uc001aqr.3_Missense_Mutation_p.R649H|UBE4B_uc010oai.1_RNA|UBE4B_uc010oaj.1_Missense_Mutation_p.R233H|UBE4B_uc001aqt.1_Missense_Mutation_p.R118H	NM_001105562	NP_001099032	O95155	UBE4B_HUMAN	ubiquitination factor E4B isoform 1	778					apoptosis|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to UV	cytoplasm|ubiquitin ligase complex	enzyme binding			ovary(2)|skin(2)	4		all_lung(284;1.13e-05)|Lung NSC(185;1.74e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0268)|Colorectal(212;1.42e-07)|COAD - Colon adenocarcinoma(227;2.77e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000435)|Kidney(185;0.000482)|KIRC - Kidney renal clear cell carcinoma(229;0.00164)|STAD - Stomach adenocarcinoma(132;0.0117)|READ - Rectum adenocarcinoma(331;0.046)		CGCTATATCCGCAGACTCCGG	0.527													11	108					0	0	0.000978	0	0	
CASZ1	54897	broad.mit.edu	37	1	10706370	10706370	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:10706370C>T	uc001aro.2	-	17	3831	c.3511G>A	c.(3511-3513)GCC>ACC	p.A1171T		NM_001079843	NP_001073312	Q86V15	CASZ1_HUMAN	castor homolog 1, zinc finger isoform a	1171					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			skin(1)	1	Ovarian(185;0.203)|all_lung(157;0.204)	Lung NSC(185;4.96e-06)|all_lung(284;1.22e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00212)|Hepatocellular(190;0.00913)|Ovarian(437;0.0229)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;3.54e-08)|COAD - Colon adenocarcinoma(227;9.56e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000219)|Kidney(185;0.00142)|KIRC - Kidney renal clear cell carcinoma(229;0.00381)|READ - Rectum adenocarcinoma(331;0.0419)|STAD - Stomach adenocarcinoma(132;0.0623)		CAGTCCGTGGCGAGGCAAGGA	0.542													6	19					0	0	0.001984	0	0	
ANGPTL7	10218	broad.mit.edu	37	1	11253813	11253813	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:11253813G>A	uc001ase.2	+	3	893	c.654G>A	c.(652-654)CGG>CGA	p.R218R	MTOR_uc001asd.2_Intron	NM_021146	NP_066969	O43827	ANGL7_HUMAN	angiopoietin-like 7 precursor	218	Fibrinogen C-terminal.				response to oxidative stress|signal transduction	extracellular region	receptor binding				0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.000818)|all_lung(284;0.00105)|Colorectal(325;0.0062)|Breast(348;0.0139)|Hepatocellular(190;0.0305)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;1.39e-06)|COAD - Colon adenocarcinoma(227;0.000244)|BRCA - Breast invasive adenocarcinoma(304;0.000294)|Kidney(185;0.000728)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0487)		AGCCAACCCGGCTGCGTGTAG	0.537													8	16					0	0	0.004482	0	0	
MTOR	2475	broad.mit.edu	37	1	11308151	11308151	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:11308151G>A	uc001asd.2	-	7	962	c.841C>T	c.(841-843)CGT>TGT	p.R281C		NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	281					cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						TCTCTCAGACGCTATATATAT	0.413													15	69					0	0	0.007413	0	0	
PTCHD2	57540	broad.mit.edu	37	1	11562098	11562098	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:11562098G>A	uc001ash.3	+	2	1187	c.1049G>A	c.(1048-1050)GGC>GAC	p.G350D	PTCHD2_uc001asi.1_Missense_Mutation_p.G350D	NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	350	Extracellular (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		GAGAGGGGCGGCAAGATCTAC	0.632													7	9					0	0	0.003080	0	0	
PTCHD2	57540	broad.mit.edu	37	1	11574496	11574496	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:11574496C>T	uc001ash.3	+	4	1504	c.1366C>T	c.(1366-1368)CGC>TGC	p.R456C	PTCHD2_uc001asi.1_Missense_Mutation_p.R456C	NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	456	Extracellular (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		CTATGAAGTGCGCAGGACGTT	0.532													26	59					0	0	0.003330	0	0	
PTCHD2	57540	broad.mit.edu	37	1	11596418	11596418	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:11596418C>T	uc001ash.3	+	21	3992	c.3854C>T	c.(3853-3855)GCC>GTC	p.A1285V		NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	1285	Extracellular (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		ACGCTGGAGGCCGTGCGGCAC	0.682													6	12					0	0	0.008291	0	0	
NPPA	4878	broad.mit.edu	37	1	11907202	11907202	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:11907202C>T	uc001ati.2	-	2	517	c.418G>A	c.(418-420)GCC>ACC	p.A140T	CLCN6_uc010oav.1_Intron|CLCN6_uc010oaw.1_Intron|CLCN6_uc010oax.1_Intron|CLCN6_uc010oay.1_Intron|CLCN6_uc010oaz.1_Intron|CLCN6_uc010oba.1_Intron	NM_006172	NP_006163	P01160	ANF_HUMAN	natriuretic peptide precursor A preproprotein	140					cGMP biosynthetic process|receptor guanylyl cyclase signaling pathway|regulation of blood pressure|regulation of blood vessel size	extracellular region	hormone activity			ovary(1)|central_nervous_system(1)	2	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00149)|all_lung(284;0.00189)|Breast(348;0.00586)|Colorectal(325;0.0062)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0556)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.04e-06)|COAD - Colon adenocarcinoma(227;0.000245)|BRCA - Breast invasive adenocarcinoma(304;0.000295)|Kidney(185;0.000733)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		CCGCTCTGGGCTCCAATCCTG	0.597													42	139					0	0	0.003610	0	0	
PLOD1	5351	broad.mit.edu	37	1	12024350	12024350	+	Missense_Mutation	SNP	C	T	T	rs11553676		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:12024350C>T	uc001atm.2	+	12	1412	c.1321C>T	c.(1321-1323)CGG>TGG	p.R441W	PLOD1_uc010obb.1_Missense_Mutation_p.R488W	NM_000302	NP_000293	Q02809	PLOD1_HUMAN	lysyl hydroxylase 1 precursor	441					epidermis development|hydroxylysine biosynthetic process|protein modification process|response to hypoxia	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein homodimerization activity			ovary(2)|breast(1)	3	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.06e-06)|COAD - Colon adenocarcinoma(227;0.000273)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.000809)|KIRC - Kidney renal clear cell carcinoma(229;0.00267)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)	Minoxidil(DB00350)|Succinic acid(DB00139)|Vitamin C(DB00126)	TGTGCAGGGGCGGCGTGTGTG	0.612													27	68					0	0	0.007291	0	0	
VPS13D	55187	broad.mit.edu	37	1	12387789	12387789	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:12387789G>A	uc001atv.2	+	36	8216	c.8075G>A	c.(8074-8076)AGC>AAC	p.S2692N	VPS13D_uc001atw.2_Missense_Mutation_p.S2692N|VPS13D_uc001atx.2_Missense_Mutation_p.S1880N|VPS13D_uc001aty.1_Missense_Mutation_p.S430N	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	2692					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		AGCCGAGATAGCCCAGGGGCT	0.488													25	62					0	0	0.007835	0	0	
VPS13D	55187	broad.mit.edu	37	1	12422824	12422824	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:12422824T>C	uc001atv.2	+	51	10331	c.10190T>C	c.(10189-10191)GTC>GCC	p.V3397A	VPS13D_uc001atw.2_Missense_Mutation_p.V3372A|VPS13D_uc001atx.2_Missense_Mutation_p.V2584A	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	3396					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		ACCTGCATGGTCATCTTTGCC	0.423													5	203					0	0	0.001168	0	0	
DHRS3	9249	broad.mit.edu	37	1	12640620	12640620	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:12640620G>A	uc001auc.2	-	2	737	c.270C>T	c.(268-270)TGC>TGT	p.C90C	DHRS3_uc001aub.2_Silent_p.C5C|DHRS3_uc009vnm.2_Silent_p.C90C|DHRS3_uc001aud.3_Silent_p.C90C|DHRS3_uc001aue.1_RNA	NM_004753	NP_004744	O75911	DHRS3_HUMAN	dehydrogenase/reductase (SDR family) member 3	90					retinol metabolic process|visual perception	integral to membrane	electron carrier activity|NADP-retinol dehydrogenase activity|nucleotide binding			skin(1)	1	Ovarian(185;0.249)	Lung NSC(185;4.11e-05)|all_lung(284;4.58e-05)|Renal(390;0.000147)|Colorectal(325;0.000585)|Breast(348;0.000596)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.023)|Colorectal(212;9.25e-07)|COAD - Colon adenocarcinoma(227;0.000326)|BRCA - Breast invasive adenocarcinoma(304;0.000344)|Kidney(185;0.00235)|KIRC - Kidney renal clear cell carcinoma(229;0.00656)|STAD - Stomach adenocarcinoma(313;0.00798)|READ - Rectum adenocarcinoma(331;0.0419)	Vitamin A(DB00162)	TGAAGTAATGGCACTCAGTGC	0.557													8	36					0	0	0.008291	0	0	
PRAMEF12	390999	broad.mit.edu	37	1	12836065	12836065	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:12836065G>A	uc001aui.2	+	2	694	c.667G>A	c.(667-669)GCC>ACC	p.A223T		NM_001080830	NP_001074299	O95522	PRA12_HUMAN	PRAME family member 12	223										ovary(3)	3	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00818)|Colorectal(212;5.04e-06)|Kidney(185;4.99e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000198)|COAD - Colon adenocarcinoma(227;0.000245)|BRCA - Breast invasive adenocarcinoma(304;0.000295)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		TATAAGGTTCGCCCCTTACCT	0.522													29	92					0	0	0.002836	0	0	
PRAMEF1	65121	broad.mit.edu	37	1	12854205	12854205	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:12854205G>A	uc001auj.1	+	3	532	c.429G>A	c.(427-429)GAG>GAA	p.E143E		NM_023013	NP_075389	O95521	PRAM1_HUMAN	PRAME family member 1	143											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		GGATGGGAGAGCACCAGCCCT	0.537													7	221					0	0	0.003163	0	0	
PRAMEF11	440560	broad.mit.edu	37	1	12884930	12884930	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:12884930A>C	uc001auk.2	-	4	1377	c.1181T>G	c.(1180-1182)ATT>AGT	p.I394S		NM_001146344	NP_001139816	O60813	PRA11_HUMAN	PRAME family member 11	394											0						CTCAGCCCTAATTTGAGCAAA	0.478													20	255					0	0	0.002780	0	0	
LOC649330	649330	broad.mit.edu	37	1	12907861	12907861	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:12907861G>A	uc009vno.2	-	1	377	c.282C>T	c.(280-282)AAC>AAT	p.N94N	HNRNPCL1_uc010obf.1_Silent_p.N94N	NM_001146181	NP_001139653	B7ZW38	B7ZW38_HUMAN	heterogeneous nuclear ribonucleoprotein C-like	94							nucleic acid binding|nucleotide binding				0						TCACACCTGCGTTTCCTCGGT	0.488													17	127					0	0	0.007413	0	0	
PRAMEF14	729528	broad.mit.edu	37	1	13669154	13669154	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:13669154A>G	uc009vnw.1	-	4	1215	c.1032T>C	c.(1030-1032)GGT>GGC	p.G344G		NM_001099854	NP_001093324	Q5SWL7	PRA14_HUMAN	PRAME family member 14	344											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		CCTTCAGGGCACCCATAGACA	0.547													11	81					0	0	0.000978	0	0	
PRDM2	7799	broad.mit.edu	37	1	14105372	14105372	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:14105372C>T	uc001avi.2	+	8	1938	c.1082C>T	c.(1081-1083)CCG>CTG	p.P361L	PRDM2_uc001avg.2_Intron|PRDM2_uc001avh.2_Missense_Mutation_p.P361L|PRDM2_uc001avj.2_Intron|PRDM2_uc009vod.1_Missense_Mutation_p.P118L|PRDM2_uc001avk.2_Missense_Mutation_p.P160L|PRDM2_uc009voe.2_Intron|PRDM2_uc009vof.2_Intron	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	361	C2H2-type 1.					Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		TTTATGTTTCCGTGTCAACAT	0.423													30	72					0	0	0.009535	0	0	
PRDM2	7799	broad.mit.edu	37	1	14105506	14105506	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:14105506C>T	uc001avi.2	+	8	2072	c.1216C>T	c.(1216-1218)CGG>TGG	p.R406W	PRDM2_uc001avg.2_Intron|PRDM2_uc001avh.2_Missense_Mutation_p.R406W|PRDM2_uc001avj.2_Intron|PRDM2_uc009vod.1_Missense_Mutation_p.R163W|PRDM2_uc001avk.2_Missense_Mutation_p.R205W|PRDM2_uc009voe.2_Intron|PRDM2_uc009vof.2_Intron	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	406	C2H2-type 2.					Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		GATTAACCGGCGGCGACATGA	0.512													16	53					0	0	0.004007	0	0	
SPEN	23013	broad.mit.edu	37	1	16255155	16255155	+	Missense_Mutation	SNP	G	A	A	rs149173601	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:16255155G>A	uc001axk.1	+	11	2624	c.2420G>A	c.(2419-2421)CGC>CAC	p.R807H	SPEN_uc010obp.1_Missense_Mutation_p.R766H	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	807	Arg-rich.				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		AGAGAGAGACGCTTAATACGG	0.423													7	190					0	0	0.003080	0	0	
SPEN	23013	broad.mit.edu	37	1	16257770	16257770	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:16257770G>A	uc001axk.1	+	11	5239	c.5035G>A	c.(5035-5037)GTC>ATC	p.V1679I	SPEN_uc010obp.1_Missense_Mutation_p.V1638I	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	1679					interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		GCCAGCTACCGTCTCAGAAGA	0.537													47	96					0	0	0.003610	0	0	
ZBTB17	7709	broad.mit.edu	37	1	16272720	16272720	+	Missense_Mutation	SNP	C	T	T	rs148471565		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:16272720C>T	uc001axl.3	-	5	703	c.464G>A	c.(463-465)CGC>CAC	p.R155H	ZBTB17_uc010obq.1_Missense_Mutation_p.R72H|ZBTB17_uc010obr.1_Missense_Mutation_p.R155H|ZBTB17_uc010obs.1_Missense_Mutation_p.R79H|ZBTB17_uc010obt.1_Missense_Mutation_p.R92H|ZBTB17_uc010obu.1_Missense_Mutation_p.R79H|ZBTB17_uc009vom.1_Missense_Mutation_p.R98H|ZBTB17_uc010obv.1_Missense_Mutation_p.R155H	NM_003443	NP_003434	Q13105	ZBT17_HUMAN	zinc finger and BTB domain containing 17	155					negative regulation of cell cycle	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(325;0.000257)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|Colorectal(212;4.12e-07)|COAD - Colon adenocarcinoma(227;2.43e-05)|BRCA - Breast invasive adenocarcinoma(304;9.97e-05)|Kidney(64;0.000182)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0649)		GGGTGTGCTGCGTCCTGCCTG	0.662													22	58					0	0	0.003330	0	0	
NBPF1	55672	broad.mit.edu	37	1	16901707	16901707	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:16901707C>T	uc009vos.1	-	20	3025	c.2137G>A	c.(2137-2139)GAT>AAT	p.D713N	NBPF1_uc009vot.1_Missense_Mutation_p.D171N|NBPF1_uc001ayz.1_Missense_Mutation_p.D171N|NBPF1_uc010oce.1_Missense_Mutation_p.D442N	NM_017940	NP_060410	Q3BBV0	NBPF1_HUMAN	hypothetical protein LOC55672	713	NBPF 3.					cytoplasm					0				UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.52e-06)|COAD - Colon adenocarcinoma(227;1.05e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.179)		ACATCTTCATCGTCATCGTTG	0.433													20	245					0	0	0.002780	0	0	
CROCCL1	84809	broad.mit.edu	37	1	16952904	16952904	+	RNA	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:16952904C>T	uc010ocf.1	-	1		c.91G>A			CROCCL1_uc009vov.1_RNA|CROCCL1_uc001aze.2_RNA|CROCCL1_uc001azf.2_RNA|CROCCL1_uc001azg.1_RNA					Homo sapiens mRNA for FLJ00313 protein.												0						TCGTTGAGGGCGCTCAGCTTG	0.642													6	90					0	0	0.001168	0	0	
MST1P2	11209	broad.mit.edu	37	1	16974552	16974552	+	RNA	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:16974552C>T	uc009vow.2	+	5		c.1362C>T			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						CTGAGTGCAGCGCCTGCTTAG	0.692													4	42					0	0	0.000602	0	0	
MST1P9	11223	broad.mit.edu	37	1	17084078	17084078	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:17084078G>C	uc010ock.1	-	14	1843	c.1843C>G	c.(1843-1845)CGA>GGA	p.R615G	CROCC_uc009voy.1_Intron|MST1P9_uc001azp.3_Missense_Mutation_p.R215G	NR_002729				SubName: Full=Hepatocyte growth factor-like protein homolog;												0						ACATGTCCTCGGTGCTTGATG	0.602													17	193					0	0	0.008871	0	0	
ATP13A2	23400	broad.mit.edu	37	1	17314944	17314944	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:17314944C>T	uc001baa.2	-	24	2825	c.2635G>A	c.(2635-2637)GGC>AGC	p.G879S	ATP13A2_uc001azz.1_Missense_Mutation_p.G26S|ATP13A2_uc001bab.2_Missense_Mutation_p.G874S|ATP13A2_uc001bac.2_Missense_Mutation_p.G835S	NM_022089	NP_071372	Q9NQ11	AT132_HUMAN	ATPase type 13A2 isoform 1	879	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(325;0.000147)|Breast(348;0.00104)|Renal(390;0.00145)|Lung NSC(340;0.00566)|all_lung(284;0.00797)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|COAD - Colon adenocarcinoma(227;1.11e-05)|BRCA - Breast invasive adenocarcinoma(304;1.99e-05)|Kidney(64;0.000171)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00645)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.182)		TCATTGGCGCCGTCTCCGCAC	0.612													18	51					0	0	0.006122	0	0	
PADI2	11240	broad.mit.edu	37	1	17413176	17413176	+	Missense_Mutation	SNP	C	T	T	rs138756249	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:17413176C>T	uc001baf.2	-	7	756	c.674G>A	c.(673-675)CGC>CAC	p.R225H	PADI2_uc010ocm.1_Missense_Mutation_p.A144T|PADI2_uc001bag.1_Missense_Mutation_p.R225H	NM_007365	NP_031391	Q9Y2J8	PADI2_HUMAN	peptidyl arginine deiminase, type II	225					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity			ovary(3)|pancreas(1)|central_nervous_system(1)|skin(1)	6		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000422)|Renal(390;0.000518)|all_lung(284;0.000546)|Ovarian(437;0.00671)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00583)|BRCA - Breast invasive adenocarcinoma(304;1.49e-05)|COAD - Colon adenocarcinoma(227;1.54e-05)|Kidney(64;0.000258)|KIRC - Kidney renal clear cell carcinoma(64;0.00348)|STAD - Stomach adenocarcinoma(196;0.0072)|READ - Rectum adenocarcinoma(331;0.0698)|Lung(427;0.201)	L-Citrulline(DB00155)	GTGGATATAGCGTTGGCCGAA	0.597													7	59					0	0	0.004482	0	0	
PADI3	51702	broad.mit.edu	37	1	17596768	17596768	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:17596768C>T	uc001bai.2	+	7	733	c.693C>T	c.(691-693)GGC>GGT	p.G231G		NM_016233	NP_057317	Q9ULW8	PADI3_HUMAN	peptidyl arginine deiminase, type III	231					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity			ovary(1)|breast(1)	2		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00488)|BRCA - Breast invasive adenocarcinoma(304;1.17e-05)|COAD - Colon adenocarcinoma(227;1.18e-05)|Kidney(64;0.000186)|KIRC - Kidney renal clear cell carcinoma(64;0.00272)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.189)	L-Citrulline(DB00155)	ATGTGCTGGGCCAAGATAAGG	0.597													7	121					0	0	0.004482	0	0	
RCC2	55920	broad.mit.edu	37	1	17743117	17743117	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:17743117G>A	uc001bal.2	-	7	932	c.885C>T	c.(883-885)ATC>ATT	p.I295I	RCC2_uc001bam.2_Silent_p.I295I	NM_001136204	NP_001129676	Q9P258	RCC2_HUMAN	regulator of chromosome condensation 2	295	RCC1 4.				cell division|mitotic prometaphase	chromosome, centromeric region|cytosol|microtubule|nucleolus|spindle					0		Colorectal(325;0.000147)|Breast(348;0.00122)|Renal(390;0.00145)|all_lung(284;0.0054)|Lung NSC(340;0.00566)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00492)|BRCA - Breast invasive adenocarcinoma(304;7.69e-06)|COAD - Colon adenocarcinoma(227;1.19e-05)|Kidney(64;0.000189)|KIRC - Kidney renal clear cell carcinoma(64;0.00273)|STAD - Stomach adenocarcinoma(196;0.0135)|READ - Rectum adenocarcinoma(331;0.0656)|Lung(427;0.19)		GTGCCCGGGCGATGAACTTCC	0.547													5	43					0	0	0.001984	0	0	
KLHDC7A	127707	broad.mit.edu	37	1	18808238	18808238	+	Missense_Mutation	SNP	G	A	A	rs145131334		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:18808238G>A	uc001bax.2	+	1	815	c.763G>A	c.(763-765)GCC>ACC	p.A255T	KLHDC7A_uc009vpg.2_Missense_Mutation_p.A37T	NM_152375	NP_689588	Q5VTJ3	KLD7A_HUMAN	kelch domain containing 7A	255						integral to membrane				ovary(2)|upper_aerodigestive_tract(1)	3		Colorectal(325;3.46e-05)|all_lung(284;0.000152)|Lung NSC(340;0.000185)|Breast(348;0.00046)|Renal(390;0.000518)|Ovarian(437;0.0014)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|BRCA - Breast invasive adenocarcinoma(304;1.41e-05)|Kidney(64;0.00017)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		GCAGGAGGGCGCCCCCAACTC	0.612													22	34					0	0	0.010504	0	0	
ALDH4A1	8659	broad.mit.edu	37	1	19199402	19199402	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:19199402C>T	uc001bbb.2	-	15	1905	c.1629G>A	c.(1627-1629)TCG>TCA	p.S543S	ALDH4A1_uc010ocu.1_Silent_p.S483S|ALDH4A1_uc001bbc.2_Silent_p.S543S	NM_170726	NP_733844	P30038	AL4A1_HUMAN	aldehyde dehydrogenase 4A1 isoform a precursor	543					proline biosynthetic process|proline catabolic process	mitochondrial matrix	1-pyrroline-5-carboxylate dehydrogenase activity|aldehyde dehydrogenase (NAD) activity|electron carrier activity				0		Colorectal(325;3.46e-05)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Renal(390;0.000518)|Breast(348;0.000812)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00479)|BRCA - Breast invasive adenocarcinoma(304;3.67e-05)|Kidney(64;0.000182)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)	NADH(DB00157)	TGACCTGCGGCGACGTCCAGC	0.587													5	53					0	0	0.001984	0	0	
UBR4	23352	broad.mit.edu	37	1	19468163	19468163	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:19468163T>C	uc001bbi.2	-	56	8292	c.8288A>G	c.(8287-8289)GAC>GGC	p.D2763G	UBR4_uc001bbk.1_Missense_Mutation_p.D445G	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	2763					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		ATCTCCATGGTCCACCTCACT	0.498													16	83					0	0	0.007413	0	0	
UBR4	23352	broad.mit.edu	37	1	19478277	19478277	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:19478277G>A	uc001bbi.2	-	48	7077	c.7073C>T	c.(7072-7074)ACT>ATT	p.T2358I	UBR4_uc001bbk.1_Missense_Mutation_p.T12I|UBR4_uc001bbl.1_Missense_Mutation_p.T295I|UBR4_uc001bbm.1_Missense_Mutation_p.T1570I	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	2358					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		TATTGCTTGAGTCCCAATCTG	0.512													21	45					0	0	0.002299	0	0	
UBR4	23352	broad.mit.edu	37	1	19524463	19524463	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:19524463G>A	uc001bbi.2	-	6	733	c.729C>T	c.(727-729)AAC>AAT	p.N243N		NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	243					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		GACTAGCCACGTTCTGAGCTA	0.418													19	122					0	0	0.003330	0	0	
KIAA0090	23065	broad.mit.edu	37	1	19566419	19566419	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:19566419G>A	uc001bbo.2	-	8	890	c.847C>T	c.(847-849)CCA>TCA	p.P283S	KIAA0090_uc001bbp.2_Missense_Mutation_p.P283S|KIAA0090_uc001bbq.2_Missense_Mutation_p.P283S|KIAA0090_uc001bbr.2_Missense_Mutation_p.P261S	NM_015047	NP_055862	Q8N766	K0090_HUMAN	hypothetical protein LOC23065 precursor	283	Extracellular (Potential).					integral to membrane	protein binding			ovary(1)	1		Colorectal(325;0.000147)|Renal(390;0.000469)|Breast(348;0.00366)|all_lung(284;0.00519)|Lung NSC(340;0.00544)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0707)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00492)|BRCA - Breast invasive adenocarcinoma(304;3.84e-05)|Kidney(64;0.000191)|KIRC - Kidney renal clear cell carcinoma(64;0.00274)|GBM - Glioblastoma multiforme(114;0.005)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0656)		GCGTCCACTGGGTTGGGCTGG	0.527													3	22					0	0	0.004672	0	0	
MUL1	79594	broad.mit.edu	37	1	20827511	20827511	+	Missense_Mutation	SNP	G	A	A	rs117689813	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:20827511G>A	uc001bdi.3	-	4	888	c.731C>T	c.(730-732)GCG>GTG	p.A244V		NM_024544	NP_078820	Q969V5	MUL1_HUMAN	mitochondrial ubiquitin ligase activator of NFKB	244	Helical; (Potential).				activation of caspase activity|activation of JUN kinase activity|induction of apoptosis|mitochondrial fission|mitochondrion localization|negative regulation of cell growth|positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to mitochondrial outer membrane|nucleus|peroxisome	identical protein binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding				0		Colorectal(325;0.000147)|Renal(390;0.000469)|Lung NSC(340;0.00412)|all_lung(284;0.00419)|Breast(348;0.00748)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.018)|COAD - Colon adenocarcinoma(152;1.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000137)|Kidney(64;0.00017)|GBM - Glioblastoma multiforme(114;0.00124)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.198)		AAAAACCAGCGCCAGCACCTT	0.592													13	44					0	0	0.001368	0	0	
RAP1GAP	5909	broad.mit.edu	37	1	21926080	21926080	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:21926080C>T	uc001bex.2	-	21	1941	c.1683G>A	c.(1681-1683)GCG>GCA	p.A561A	RAP1GAP_uc001bev.2_Silent_p.A646A|RAP1GAP_uc001bew.2_Silent_p.A625A|RAP1GAP_uc001bey.2_Silent_p.A587A	NM_002885	NP_002876	P47736	RPGP1_HUMAN	RAP1 GTPase activating protein isoform c	561					regulation of Ras GTPase activity|signal transduction	cytosol|Golgi membrane|membrane fraction	GTPase activator activity|GTPase activity|protein homodimerization activity|Ras GTPase binding			breast(2)|ovary(1)	3		Colorectal(325;0.000147)|Renal(390;0.000734)|Lung NSC(340;0.000861)|all_lung(284;0.000901)|Breast(348;0.012)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0192)|OV - Ovarian serous cystadenocarcinoma(117;2.3e-26)|COAD - Colon adenocarcinoma(152;1.59e-05)|GBM - Glioblastoma multiforme(114;2.7e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000354)|STAD - Stomach adenocarcinoma(196;0.00645)|KIRC - Kidney renal clear cell carcinoma(1967;0.00862)|READ - Rectum adenocarcinoma(331;0.0625)|Lung(427;0.146)		AGTCCTTGAGCGCCTCTGCTC	0.672													4	13					0	0	0.009096	0	0	
USP48	84196	broad.mit.edu	37	1	22030030	22030030	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:22030030A>G	uc001bfb.2	-	21	2835	c.2597T>C	c.(2596-2598)GTC>GCC	p.V866A	USP48_uc001bfa.2_Missense_Mutation_p.V404A|USP48_uc010odq.1_Missense_Mutation_p.V878A|USP48_uc009vqc.2_Missense_Mutation_p.V800A|USP48_uc001bfc.2_Missense_Mutation_p.V866A|USP48_uc001bfd.1_Intron	NM_032236	NP_115612	Q86UV5	UBP48_HUMAN	ubiquitin specific protease 48 isoform a	866					ubiquitin-dependent protein catabolic process	mitochondrion|nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(1)|lung(1)	2		Colorectal(325;3.46e-05)|all_lung(284;4.29e-05)|Lung NSC(340;4.66e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|OV - Ovarian serous cystadenocarcinoma(117;4.74e-26)|COAD - Colon adenocarcinoma(152;1.3e-05)|GBM - Glioblastoma multiforme(114;1.86e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000614)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(1967;0.00711)|Lung(427;0.0327)|READ - Rectum adenocarcinoma(331;0.0657)|LUSC - Lung squamous cell carcinoma(448;0.0753)		AACTTTATGGACATAGATGGT	0.428													21	71					0	0	0.003330	0	0	
EPHB2	2048	broad.mit.edu	37	1	23191488	23191488	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:23191488C>T	uc009vqj.1	+	5	1231	c.1086C>T	c.(1084-1086)TGC>TGT	p.C362C	EPHB2_uc001bge.2_Silent_p.C362C|EPHB2_uc001bgf.2_Silent_p.C362C|EPHB2_uc010odu.1_Silent_p.C362C|hsa-mir-4253|MI0015860_5'Flank	NM_017449	NP_059145	P29323	EPHB2_HUMAN	ephrin receptor EphB2 isoform 1 precursor	362	Extracellular (Potential).|Fibronectin type-III 1.				axon guidance	integral to plasma membrane	ATP binding|transmembrane-ephrin receptor activity			ovary(3)|lung(1)|pancreas(1)	5		Colorectal(325;3.46e-05)|Lung NSC(340;3.7e-05)|all_lung(284;5.45e-05)|Renal(390;0.000228)|Breast(348;0.0027)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0258)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0348)|OV - Ovarian serous cystadenocarcinoma(117;3.67e-26)|Colorectal(126;3.23e-08)|COAD - Colon adenocarcinoma(152;9.32e-07)|GBM - Glioblastoma multiforme(114;2.93e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000606)|KIRC - Kidney renal clear cell carcinoma(1967;0.00371)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.126)|Lung(427;0.153)		ACATCATCTGCAAGAGCTGTG	0.617									Hereditary_Prostate_Cancer				10	25					0	0	0.001855	0	0	
LDLRAP1	26119	broad.mit.edu	37	1	25883728	25883728	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:25883728C>T	uc001bkl.3	+	4	543	c.429C>T	c.(427-429)TGC>TGT	p.C143C		NM_015627	NP_056442	Q5SW96	ARH_HUMAN	low density lipoprotein receptor adaptor protein	143	PID.				amyloid precursor protein metabolic process|cholesterol homeostasis|cholesterol metabolic process|positive regulation of receptor-mediated endocytosis|receptor internalization|receptor-mediated endocytosis of low-density lipoprotein particle involved in cholesterol transport|regulation of establishment of protein localization in plasma membrane|regulation of protein binding	basal plasma membrane|cytosol|early endosome|internal side of plasma membrane|neurofilament|recycling endosome	beta-amyloid binding|clathrin binding|low-density lipoprotein particle receptor binding|phosphatidylinositol-4,5-bisphosphate binding|phosphotyrosine binding|protein binding, bridging|protein complex binding|receptor signaling complex scaffold activity|signaling adaptor activity			ovary(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.000245)|all_lung(284;0.000335)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0936)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;1.63e-26)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000728)|STAD - Stomach adenocarcinoma(196;0.000766)|BRCA - Breast invasive adenocarcinoma(304;0.000969)|GBM - Glioblastoma multiforme(114;0.00914)|READ - Rectum adenocarcinoma(331;0.0649)		GCCTCGAGTGCCACGCCTTCC	0.622													10	27					0	0	0.001855	0	0	
C1orf135	79000	broad.mit.edu	37	1	26161648	26161648	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:26161648C>T	uc001bkw.1	-	3	910	c.910G>A	c.(910-912)GCT>ACT	p.A304T		NM_024037	NP_076942	Q9H7T9	CA135_HUMAN	aurora A-binding protein	304											0		Colorectal(325;0.000147)|Renal(390;0.00211)|Lung NSC(340;0.00521)|all_lung(284;0.00764)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.0675)|all_neural(195;0.117)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0429)|OV - Ovarian serous cystadenocarcinoma(117;3.28e-25)|Colorectal(126;3.23e-08)|COAD - Colon adenocarcinoma(152;1.75e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000787)|BRCA - Breast invasive adenocarcinoma(304;0.00102)|STAD - Stomach adenocarcinoma(196;0.00154)|GBM - Glioblastoma multiforme(114;0.015)|READ - Rectum adenocarcinoma(331;0.0649)		TGAAAAGGAGCTCTAGTGTTG	0.473													5	184					0	0	0.000602	0	0	
EXTL1	2134	broad.mit.edu	37	1	26349584	26349584	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:26349584G>A	uc001blf.2	+	1	1314	c.447G>A	c.(445-447)ATG>ATA	p.M149I		NM_004455	NP_004446	Q92935	EXTL1_HUMAN	exostoses-like 1	149	Lumenal (Potential).				skeletal system development	integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|protein binding			central_nervous_system(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;6.18e-05)|all_lung(284;9.43e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0298)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;6.44e-26)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|BRCA - Breast invasive adenocarcinoma(304;0.000954)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00594)|READ - Rectum adenocarcinoma(331;0.0649)		GCAGCTCAATGCCTCTGCAAT	0.632													11	37					0	0	0.000978	0	0	
EXTL1	2134	broad.mit.edu	37	1	26361326	26361326	+	Splice_Site	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:26361326G>T	uc001blf.2	+	10	2547	c.1680_splice	c.e10-1	p.R560_splice		NM_004455	NP_004446	Q92935	EXTL1_HUMAN	exostoses-like 1						skeletal system development	integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|protein binding			central_nervous_system(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;6.18e-05)|all_lung(284;9.43e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0298)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;6.44e-26)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|BRCA - Breast invasive adenocarcinoma(304;0.000954)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00594)|READ - Rectum adenocarcinoma(331;0.0649)		CTCTTGCCCAGGTATTACCAC	0.577													7	158					2.0095e-06	2.12941e-06	0.001984	1	0	
RPS6KA1	6195	broad.mit.edu	37	1	26900639	26900639	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:26900639T>C	uc001bmr.1	+	22	2318	c.2155T>C	c.(2155-2157)TCA>CCA	p.S719P	RPS6KA1_uc010ofe.1_Missense_Mutation_p.S627P|RPS6KA1_uc001bms.1_Missense_Mutation_p.S728P|RPS6KA1_uc009vsl.1_Missense_Mutation_p.S562P	NM_002953	NP_002944	Q15418	KS6A1_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	719					axon guidance|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|caspase inhibitor activity|magnesium ion binding|protein binding|protein serine/threonine kinase activity			lung(1)	1		all_cancers(24;2.49e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.00571)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;1.12e-50)|OV - Ovarian serous cystadenocarcinoma(117;2.89e-29)|Colorectal(126;1.4e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000537)|KIRC - Kidney renal clear cell carcinoma(1967;0.000759)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0361)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.161)|LUSC - Lung squamous cell carcinoma(448;0.234)		GCCCATCGAGTCATCCATCCT	0.622													8	26					0	0	0.003080	0	0	
ARID1A	8289	broad.mit.edu	37	1	27105886	27105886	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:27105886C>T	uc001bmv.1	+	20	5870	c.5497C>T	c.(5497-5499)CGT>TGT	p.R1833C	ARID1A_uc001bmu.1_Missense_Mutation_p.R1616C|ARID1A_uc001bmx.1_Missense_Mutation_p.R679C|ARID1A_uc009vsm.1_Missense_Mutation_p.R161C|ARID1A_uc009vsn.1_Missense_Mutation_p.R75C	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1833					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		TAAGCTTGGGCGTGTGCAGGA	0.512			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								13	41					0	0	0.006122	0	0	
GPR3	2827	broad.mit.edu	37	1	27720703	27720703	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:27720703G>A	uc001bod.2	+	2	496	c.401G>A	c.(400-402)CGC>CAC	p.R134H		NM_005281	NP_005272	P46089	GPR3_HUMAN	G protein-coupled receptor 3	134	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway	integral to plasma membrane				ovary(1)	1		Breast(348;1.53e-05)|Ovarian(437;0.0606)|all_lung(284;0.157)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0415)|OV - Ovarian serous cystadenocarcinoma(117;2.81e-26)|Colorectal(126;1.24e-08)|KIRC - Kidney renal clear cell carcinoma(1967;3.23e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;4.45e-06)|Lung(427;0.00163)|STAD - Stomach adenocarcinoma(196;0.00303)|LUSC - Lung squamous cell carcinoma(448;0.008)|READ - Rectum adenocarcinoma(331;0.0419)		ACTGTCGACCGCTACCTTTCT	0.577													12	57					0	0	0.003163	0	0	
PPP1R8	5511	broad.mit.edu	37	1	28176610	28176610	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:28176610C>T	uc001bov.1	+	7	763	c.709C>T	c.(709-711)CGT>TGT	p.R237C	PPP1R8_uc001bow.1_Missense_Mutation_p.R95C|PPP1R8_uc001box.1_Missense_Mutation_p.R13C|PPP1R8_uc009vtc.1_RNA|PPP1R8_uc009vtd.1_RNA	NM_014110	NP_054829	Q12972	PP1R8_HUMAN	protein phosphatase 1 regulatory inhibitor	237	Nuclear localization signal 2.			KKKR->AAAA: Abolishes nuclear import; when associated with A-195-197-A.	mRNA processing|regulation of transcription, DNA-dependent|RNA catabolic process|RNA splicing|transcription, DNA-dependent	cytoplasm|nuclear speck|spliceosomal complex	DNA binding|endonuclease activity|protein binding|protein serine/threonine phosphatase inhibitor activity|ribonuclease E activity|RNA binding				0		Colorectal(325;3.46e-05)|all_lung(284;0.000129)|Lung NSC(340;0.000259)|Renal(390;0.00121)|Breast(348;0.00345)|Ovarian(437;0.00503)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0419)|OV - Ovarian serous cystadenocarcinoma(117;2.76e-24)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00248)|KIRC - Kidney renal clear cell carcinoma(1967;0.00273)|STAD - Stomach adenocarcinoma(196;0.00303)|READ - Rectum adenocarcinoma(331;0.0649)		GTAGAAGAAGCGTGTGGAGGG	0.572													26	134					0	0	0.002445	0	0	
YTHDF2	51441	broad.mit.edu	37	1	29070189	29070189	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:29070189C>T	uc001brc.2	+	4	1904	c.1407C>T	c.(1405-1407)GGC>GGT	p.G469G	YTHDF2_uc001brd.2_Silent_p.G466G|YTHDF2_uc010ofx.1_Silent_p.G419G|YTHDF2_uc001bre.2_Silent_p.G419G	NM_016258	NP_057342	Q9Y5A9	YTHD2_HUMAN	high glucose-regulated protein 8	469	YTH.				humoral immune response					ovary(1)|skin(1)	2		Colorectal(325;3.46e-05)|Lung NSC(340;0.000601)|all_lung(284;0.000771)|Breast(348;0.00502)|Renal(390;0.00758)|all_neural(195;0.0227)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;8.36e-08)|COAD - Colon adenocarcinoma(152;5.46e-06)|STAD - Stomach adenocarcinoma(196;0.00299)|BRCA - Breast invasive adenocarcinoma(304;0.0221)|KIRC - Kidney renal clear cell carcinoma(1967;0.0296)|READ - Rectum adenocarcinoma(331;0.0649)		ACTTCTGTGGCGTGGCAGAAA	0.483													11	27					0	0	0.000978	0	0	
EPB41	2035	broad.mit.edu	37	1	29365769	29365769	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:29365769G>C	uc001brm.1	+	10	1474	c.1467G>C	c.(1465-1467)TTG>TTC	p.L489F	EPB41_uc001brg.1_Missense_Mutation_p.L280F|EPB41_uc001brh.1_Missense_Mutation_p.L280F|EPB41_uc001bri.1_Missense_Mutation_p.L454F|EPB41_uc001brj.1_Missense_Mutation_p.L280F|EPB41_uc009vtk.1_Missense_Mutation_p.L454F|EPB41_uc001brk.2_Missense_Mutation_p.L489F|EPB41_uc001brl.1_Missense_Mutation_p.L489F|EPB41_uc009vtl.1_Missense_Mutation_p.L280F|EPB41_uc009vtm.1_Missense_Mutation_p.L122F	NM_203342	NP_976217	P11171	41_HUMAN	erythrocyte membrane protein band 4.1	489	FERM.				blood circulation|cortical actin cytoskeleton organization|positive regulation of protein binding	extrinsic to membrane|Golgi apparatus|nucleus|plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	1-phosphatidylinositol binding|actin binding|spectrin binding|structural constituent of cytoskeleton			ovary(1)	1		Colorectal(325;3.46e-05)|Prostate(1639;0.000244)|Lung NSC(340;0.00328)|all_lung(284;0.00412)|Breast(348;0.00765)|all_neural(195;0.0199)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)|Medulloblastoma(700;0.123)		Colorectal(126;3.12e-07)|COAD - Colon adenocarcinoma(152;1.21e-05)|STAD - Stomach adenocarcinoma(196;0.00395)|KIRC - Kidney renal clear cell carcinoma(1967;0.0249)|BRCA - Breast invasive adenocarcinoma(304;0.0289)|READ - Rectum adenocarcinoma(331;0.0757)		CCCCCAGATTGACATCTACAG	0.353													28	59					0	0	0.007291	0	0	
MECR	51102	broad.mit.edu	37	1	29533360	29533360	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:29533360T>C	uc001brq.1	-	4	500	c.464A>G	c.(463-465)GAC>GGC	p.D155G	MECR_uc001brp.1_Missense_Mutation_p.D79G|MECR_uc001brr.1_Missense_Mutation_p.D79G|MECR_uc001brs.1_RNA|MECR_uc001brt.1_Missense_Mutation_p.D79G|MECR_uc010ofz.1_Missense_Mutation_p.D155G	NM_016011	NP_057095	Q9BV79	MECR_HUMAN	trans-2-enoyl-CoA reductase, mitochondrial	155					fatty acid biosynthetic process	mitochondrion	trans-2-enoyl-CoA reductase (NADPH) activity|zinc ion binding			ovary(1)	1		Colorectal(325;0.000389)|Breast(348;0.00765)|Lung NSC(340;0.0081)|all_lung(284;0.00914)|all_neural(195;0.0199)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)|Medulloblastoma(700;0.123)		Colorectal(126;3.39e-07)|COAD - Colon adenocarcinoma(152;2.04e-05)|STAD - Stomach adenocarcinoma(196;0.0195)|BRCA - Breast invasive adenocarcinoma(304;0.053)|READ - Rectum adenocarcinoma(331;0.0649)|KIRC - Kidney renal clear cell carcinoma(1967;0.137)		AAGAGGGATGTCACTCGGAAC	0.567													8	39					0	0	0.004482	0	0	
FABP3	2170	broad.mit.edu	37	1	31838774	31838774	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:31838774C>T	uc001bss.1	-	4	423	c.361G>A	c.(361-363)GGC>AGC	p.G121S		NM_004102	NP_004093	P05413	FABPH_HUMAN	fatty acid binding protein 3	121					negative regulation of cell proliferation					ovary(1)	1		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|all_neural(195;0.0629)|Breast(348;0.0707)|Medulloblastoma(700;0.123)		STAD - Stomach adenocarcinoma(196;0.0185)|READ - Rectum adenocarcinoma(331;0.149)		ACTGCAGTGCCGTGGGTGAGT	0.542													8	24					0	0	0.003080	0	0	
TINAGL1	64129	broad.mit.edu	37	1	32042850	32042850	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:32042850G>A	uc001bta.2	+	2	227	c.101G>A	c.(100-102)GGT>GAT	p.G34D	TINAGL1_uc001bsz.2_Intron|TINAGL1_uc010ogi.1_Missense_Mutation_p.G34D|TINAGL1_uc010ogj.1_Missense_Mutation_p.G34D|TINAGL1_uc010ogk.1_Missense_Mutation_p.G34D	NM_022164	NP_071447	Q9GZM7	TINAL_HUMAN	tubulointerstitial nephritis antigen-like 1	34					endosome transport|immune response|proteolysis	extracellular region	cysteine-type endopeptidase activity|extracellular matrix structural constituent|polysaccharide binding|scavenger receptor activity				0		Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		STAD - Stomach adenocarcinoma(196;0.0526)|READ - Rectum adenocarcinoma(331;0.145)		CTAGCACCGGGTCTGCACCTG	0.711													4	11					0	0	0.000602	0	0	
SPOCD1	90853	broad.mit.edu	37	1	32265460	32265460	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:32265460C>T	uc001bts.1	-	6	1791	c.1733G>A	c.(1732-1734)GGC>GAC	p.G578D	SPOCD1_uc001btt.2_5'Flank|SPOCD1_uc001btu.2_Missense_Mutation_p.G578D|SPOCD1_uc001btv.2_Missense_Mutation_p.G71D|SPOCD1_uc001btw.1_5'Flank	NM_144569	NP_653170	Q6ZMY3	SPOC1_HUMAN	SPOC domain containing 1	578					transcription, DNA-dependent					ovary(5)|breast(1)	6		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)|Ovarian(437;0.199)		STAD - Stomach adenocarcinoma(196;0.18)		CTCCATTGGGCCACTCTGTAG	0.622													4	29					0	0	0.001168	0	0	
EIF3I	8668	broad.mit.edu	37	1	32690021	32690021	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:32690021G>A	uc001bur.3	+	5	728	c.195G>A	c.(193-195)AAG>AAA	p.K65K	C1orf91_uc001buo.3_5'Flank|C1orf91_uc001bup.3_5'Flank|C1orf91_uc009vub.1_5'Flank|C1orf91_uc010oha.1_5'Flank|C1orf91_uc001buq.3_5'Flank|EIF3I_uc009vuc.2_Silent_p.K65K|EIF3I_uc001bus.2_Silent_p.K17K	NM_003757	NP_003748	Q13347	EIF3I_HUMAN	eukaryotic translation initiation factor 3,	65	WD 2.					cytosol|eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.212)				GGGACACCAAGCATGTCCTCA	0.488													5	48					0	0	0.003080	0	0	
SYNC	81493	broad.mit.edu	37	1	33160998	33160998	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:33160998C>T	uc001bvt.2	-	2	801	c.701G>A	c.(700-702)GGC>GAC	p.G234D	SYNC_uc010ohl.1_Missense_Mutation_p.G234D	NM_030786	NP_110413	Q9H7C4	SYNCI_HUMAN	syncoilin, intermediate filament 1 isoform 1	234	Coil 1b.					intermediate filament|perinuclear region of cytoplasm	structural molecule activity			ovary(1)	1						CTCCCTTAGGCCATCTCTCTC	0.562													3	4					0	0	0.009096	0	0	
PHC2	1912	broad.mit.edu	37	1	33836643	33836643	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:33836643G>A	uc001bxg.1	-	3	440	c.386C>T	c.(385-387)GCG>GTG	p.A129V	PHC2_uc001bxh.1_Missense_Mutation_p.A129V|PHC2_uc009vuh.1_Missense_Mutation_p.A129V|PHC2_uc001bxi.1_Missense_Mutation_p.A129V	NM_198040	NP_932157	Q8IXK0	PHC2_HUMAN	polyhomeotic-like 2 isoform a	129					multicellular organismal development	PcG protein complex	DNA binding|identical protein binding|zinc ion binding			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)				CGGGGCCTGCGCAGACACATT	0.562													25	43					0	0	0.002836	0	0	
PHC2	1912	broad.mit.edu	37	1	33840979	33840979	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:33840979C>T	uc001bxg.1	-	1	216	c.162G>A	c.(160-162)CGG>CGA	p.R54R	PHC2_uc001bxh.1_Silent_p.R54R|PHC2_uc009vuh.1_Silent_p.R54R|PHC2_uc001bxi.1_Silent_p.R54R	NM_198040	NP_932157	Q8IXK0	PHC2_HUMAN	polyhomeotic-like 2 isoform a	54					multicellular organismal development	PcG protein complex	DNA binding|identical protein binding|zinc ion binding			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)				GCACGGTCTGCCGGTCTGGAA	0.373													18	76					0	0	0.008871	0	0	
ZSCAN20	7579	broad.mit.edu	37	1	33944899	33944899	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:33944899G>A	uc001bxj.3	+	2	177	c.10G>A	c.(10-12)GCC>ACC	p.A4T	ZSCAN20_uc001bxk.2_Missense_Mutation_p.A4T|ZSCAN20_uc009vui.2_Missense_Mutation_p.A4T	NM_145238	NP_660281	P17040	ZSC20_HUMAN	zinc finger protein 31	4					viral reproduction	mitochondrion|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)				AATGGCTATGGCCCTGGAATT	0.507													8	83					0	0	0.008291	0	0	
CSMD2	114784	broad.mit.edu	37	1	33985194	33985194	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:33985194T>C	uc001bxn.1	-	69	10417	c.10388A>G	c.(10387-10389)GAC>GGC	p.D3463G	CSMD2_uc001bxm.1_Missense_Mutation_p.D3607G	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	3463	Cytoplasmic (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				GATGTTGCGGTCGTACATTGG	0.562													46	114					0	0	0.003610	0	0	
CSMD2	114784	broad.mit.edu	37	1	34128652	34128652	+	Missense_Mutation	SNP	C	T	T	rs142169949	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:34128652C>T	uc001bxn.1	-	26	4002	c.3973G>A	c.(3973-3975)GTG>ATG	p.V1325M	CSMD2_uc001bxm.1_Missense_Mutation_p.V1365M|CSMD2_uc001bxo.1_Missense_Mutation_p.V238M	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	1325	CUB 8.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				ATGCGCAGCACGTCGTGAACC	0.602													16	25					0	0	0.010504	0	0	
ZMYM4	9202	broad.mit.edu	37	1	35855553	35855553	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:35855553C>T	uc001byt.2	+	15	2521	c.2441C>T	c.(2440-2442)GCC>GTC	p.A814V	ZMYM4_uc009vuu.2_Missense_Mutation_p.A782V|ZMYM4_uc001byu.2_Missense_Mutation_p.A490V|ZMYM4_uc009vuv.2_Missense_Mutation_p.A553V	NM_005095	NP_005086	Q5VZL5	ZMYM4_HUMAN	zinc finger protein 262	814	MYM-type 9.				multicellular organismal development		DNA binding|zinc ion binding			large_intestine(2)|ovary(1)|kidney(1)|skin(1)	5		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				TTTTAGATGGCCAAATGTGAT	0.368													8	58					0	0	0.008291	0	0	
PSMB2	5690	broad.mit.edu	37	1	36074953	36074953	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:36074953C>T	uc001bzf.1	-	4	452	c.342G>A	c.(340-342)GCG>GCA	p.A114A	PSMB2_uc001bzd.1_Silent_p.A114A|PSMB2_uc010ohz.1_Silent_p.A89A|PSMB2_uc001bzg.1_Silent_p.A114A	NM_002794	NP_002785	P49721	PSB2_HUMAN	proteasome beta 2 subunit	114					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex	threonine-type endopeptidase activity				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)			Bortezomib(DB00188)	TGTAATACAGCGCTGGCCCTT	0.512													4	42					0	0	0.009096	0	0	
CLSPN	63967	broad.mit.edu	37	1	36203693	36203693	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:36203693C>T	uc001bzi.2	-	22	3644	c.3564G>A	c.(3562-3564)CAG>CAA	p.Q1188Q	CLSPN_uc009vux.2_Silent_p.Q1124Q	NM_022111	NP_071394	Q9HAW4	CLSPN_HUMAN	claspin	1188					activation of protein kinase activity|cell cycle|cellular component disassembly involved in apoptosis|DNA repair|DNA replication|G2/M transition DNA damage checkpoint|mitotic cell cycle DNA replication checkpoint|peptidyl-serine phosphorylation	nucleoplasm	anaphase-promoting complex binding|DNA binding			breast(2)|ovary(2)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)	8		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				TTTTCCCCTGCTGTGCCTGAA	0.343													9	20					0	0	0.008291	0	0	
EIF2C1	26523	broad.mit.edu	37	1	36367904	36367904	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:36367904G>A	uc001bzl.2	+	11	1576	c.1363G>A	c.(1363-1365)GCA>ACA	p.A455T	EIF2C1_uc001bzk.2_Missense_Mutation_p.A380T|EIF2C1_uc009vuy.2_Intron	NM_012199	NP_036331	Q9UL18	AGO1_HUMAN	eukaryotic translation initiation factor 2C, 1	455					negative regulation of translation involved in gene silencing by miRNA|nuclear-transcribed mRNA catabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|polysome	protein binding|RNA binding			ovary(2)|skin(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				CGCCTGCTTCGCACCCCAAAA	0.572													11	42					0	0	0.001368	0	0	
THRAP3	9967	broad.mit.edu	37	1	36752132	36752132	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:36752132C>T	uc001cae.3	+	4	525	c.301C>T	c.(301-303)CGA>TGA	p.R101*	THRAP3_uc001caf.3_Nonsense_Mutation_p.R101*|THRAP3_uc001cag.1_Nonsense_Mutation_p.R101*	NM_005119	NP_005110	Q9Y2W1	TR150_HUMAN	thyroid hormone receptor associated protein 3	101	Arg-rich.|Ser-rich.				androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ATP binding|ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(5)|lung(3)|breast(1)	9		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				CCAATATAACCGAGGAGGCTA	0.502			T	USP6	aneurysmal bone cysts								6	141					0	0	0.003080	0	0	
OSCP1	127700	broad.mit.edu	37	1	36886127	36886127	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:36886127G>A	uc001cap.2	-	9	1021	c.939C>T	c.(937-939)GGC>GGT	p.G313G	OSCP1_uc001caq.2_Silent_p.G303G	NM_145047	NP_659484	Q8WVF1	OSCP1_HUMAN	oxidored-nitro domain-containing protein isoform	313					transport	basal plasma membrane				ovary(2)|central_nervous_system(1)|pancreas(1)	4						CGGGCTCAGGGCCACTGGGTT	0.348											OREG0013368	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	22	304					0	0	0.002780	0	0	
EPHA10	284656	broad.mit.edu	37	1	38227345	38227345	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:38227345G>A	uc009vvi.2	-	3	668	c.582C>T	c.(580-582)GAC>GAT	p.D194D	EPHA10_uc001cbw.3_Silent_p.D194D	NM_001099439	NP_001092909	Q5JZY3	EPHAA_HUMAN	EPH receptor A10 isofom 3	194	Extracellular (Potential).					extracellular region|integral to membrane|integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding|transmembrane-ephrin receptor activity			breast(4)|stomach(3)|lung(1)	8	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				ATGCGCCCACGTCCTGAAAGG	0.677													5	18					0	0	0.000602	0	0	
MACF1	23499	broad.mit.edu	37	1	39797772	39797772	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:39797772G>A	uc010oiu.1	+	1	963	c.832G>A	c.(832-834)GCC>ACC	p.A278T	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc001cdb.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	1843	Plectin 4.				cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			TGCTAAGATCGCCCTTGTGAT	0.488													23	53					0	0	0.003954	0	0	
MACF1	23499	broad.mit.edu	37	1	39926453	39926453	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:39926453C>T	uc010oiu.1	+	57	16970	c.16839C>T	c.(16837-16839)GGC>GGT	p.G5613G	MACF1_uc010ois.1_Silent_p.G5111G|MACF1_uc001cde.1_5'Flank|MACF1_uc001cdf.1_5'Flank	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	7069	EF-hand 1.				cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			TTATCGATGGCATTTTAGCAT	0.433													19	100					0	0	0.003954	0	0	
MACF1	23499	broad.mit.edu	37	1	39951352	39951352	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:39951352C>T	uc010oiu.1	+	64	17834	c.17703C>T	c.(17701-17703)AGC>AGT	p.S5901S	MACF1_uc010ois.1_Silent_p.S5393S|MACF1_uc001cde.1_Silent_p.S307S|MACF1_uc001cdf.1_Silent_p.S276S|MACF1_uc001cdg.2_3'UTR|MACF1_uc001cdh.2_3'UTR	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	7351	Ser-rich.|C-terminal tail (By similarity).				cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			CAGAAAGCAGCGCTGCAGGGG	0.507													15	61					0	0	0.004990	0	0	
PPIE	10450	broad.mit.edu	37	1	40205879	40205879	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:40205879C>T	uc001cds.1	+	2	117	c.74C>T	c.(73-75)GCG>GTG	p.A25V	PPIE_uc001cdt.1_5'UTR|PPIE_uc010oiy.1_5'UTR|PPIE_uc001cdu.1_RNA|PPIE_uc001cdv.2_Missense_Mutation_p.A25V|PPIE_uc001cdw.2_Missense_Mutation_p.A25V|PPIE_uc001cdx.1_5'Flank	NM_006112	NP_006103	Q9UNP9	PPIE_HUMAN	peptidylprolyl isomerase E isoform 1	25	RRM.				protein folding|regulation of transcription, DNA-dependent	catalytic step 2 spliceosome	cyclosporin A binding|nucleotide binding|peptidyl-prolyl cis-trans isomerase activity|protein binding|RNA binding				0	all_cancers(7;1.63e-13)|all_lung(5;2.27e-16)|all_epithelial(6;1.35e-15)|Lung NSC(20;1.49e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.87e-18)|Epithelial(16;2.7e-17)|all cancers(16;5.5e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			CTTCATGCTGCGTTCATTCCT	0.453													4	33					0	0	0.009096	0	0	
MYCL1	4610	broad.mit.edu	37	1	40363547	40363547	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:40363547G>A	uc001cer.1	-	3	809	c.592C>T	c.(592-594)CCC>TCC	p.P198S	MYCL1_uc001ces.1_Missense_Mutation_p.P198S	NM_001033082	NP_001028254	P12524	MYCL1_HUMAN	l-myc-1 proto-oncogene isoform 1	198						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)|liver(1)	2	all_cancers(7;1.73e-14)|all_lung(5;2.77e-17)|all_epithelial(6;6.81e-17)|Lung SC(1;2.85e-13)|Lung NSC(20;7.03e-07)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.51e-19)|Epithelial(16;3.36e-18)|all cancers(16;8.43e-17)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			TTCATGCAGGGATCCAGGGGG	0.517			A		small cell lung 								6	75					0	0	0.003080	0	0	
RLF	6018	broad.mit.edu	37	1	40702413	40702413	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:40702413G>A	uc001cfc.3	+	8	2070	c.2039G>A	c.(2038-2040)CGT>CAT	p.R680H	RLF_uc001cfd.3_Missense_Mutation_p.R371H	NM_012421	NP_036553	Q13129	RLF_HUMAN	rearranged L-myc fusion	680	C2H2-type 2.				chromosome organization|DNA integration|DNA mediated transformation|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			ovary(2)|pancreas(1)	3	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;5.87e-19)|Epithelial(16;7.02e-16)|all cancers(16;1.69e-14)|Lung(16;0.0427)|LUSC - Lung squamous cell carcinoma(16;0.0461)			GACTGTTCCCGTGTGTTTAAG	0.378													27	87					0	0	0.008361	0	0	
SMAP2	64744	broad.mit.edu	37	1	40887722	40887722	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:40887722C>T	uc001cfj.2	+	10	1304	c.1239C>T	c.(1237-1239)GGC>GGT	p.G413G	SMAP2_uc001cfk.2_Silent_p.G383G|SMAP2_uc010oji.1_Silent_p.G330G|SMAP2_uc010ojj.1_Silent_p.G229G	NM_022733	NP_073570	Q8WU79	SMAP2_HUMAN	small ArfGAP2	413	Interaction with PICALM (By similarity).				regulation of ARF GTPase activity	cytoplasm|nucleus	ARF GTPase activator activity|zinc ion binding				0	Lung NSC(20;1.56e-05)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;1.04e-17)			CAATGAGTGGCGGAAATGGAC	0.493													14	44					0	0	0.010504	0	0	
DEM1	64789	broad.mit.edu	37	1	40981166	40981166	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:40981166C>T	uc001cfp.2	+	3	1155	c.950C>T	c.(949-951)GCC>GTC	p.A317V	DEM1_uc001cfq.2_Missense_Mutation_p.A317V|DEM1_uc001cfr.2_Missense_Mutation_p.A317V|DEM1_uc001cfs.2_Missense_Mutation_p.A317V	NM_022774	NP_073611	Q9H790	EXO5_HUMAN	defects in morphology 1 homolog	317							DNA binding|exonuclease activity				0						GAGGTGAGAGCCAAGGTGCAG	0.522													7	51					0	0	0.001984	0	0	
KCNQ4	9132	broad.mit.edu	37	1	41300742	41300742	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:41300742C>T	uc001cgh.1	+	12	1799	c.1717C>T	c.(1717-1719)CTG>TTG	p.L573L	KCNQ4_uc001cgi.1_Silent_p.L519L	NM_004700	NP_004691	P56696	KCNQ4_HUMAN	potassium voltage-gated channel KQT-like protein	573	Cytoplasmic.|A-domain (Tetramerization).				sensory perception of sound	basal plasma membrane|voltage-gated potassium channel complex				central_nervous_system(1)	1	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.38e-17)			CCTGGACATGCTGGGCCGGAT	0.602													22	57					0	0	0.003330	0	0	
CTPS	1503	broad.mit.edu	37	1	41463094	41463094	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:41463094A>G	uc001cgk.3	+	9	1409	c.901A>G	c.(901-903)ATT>GTT	p.I301V	CTPS_uc010ojo.1_Missense_Mutation_p.I70V|CTPS_uc001cgl.3_Missense_Mutation_p.I301V|CTPS_uc010ojq.1_Missense_Mutation_p.I145V|CTPS_uc009vwe.2_Missense_Mutation_p.I21V	NM_001905	NP_001896	P17812	PYRG1_HUMAN	CTP synthase	301	Glutamine amidotransferase type-1.				CTP biosynthetic process|glutamine metabolic process|nucleobase, nucleoside and nucleotide interconversion|response to drug	cytosol	ATP binding|CTP synthase activity|protein binding				0	Ovarian(52;0.00579)|all_hematologic(146;0.0977)|Breast(333;0.1)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0255)			L-Glutamine(DB00130)	GACCTGCTCTATTGCCCTTGT	0.428													8	94					0	0	0.004482	0	0	
SLFNL1	200172	broad.mit.edu	37	1	41483534	41483534	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:41483534G>A	uc001cgm.1	-	3	950	c.730C>T	c.(730-732)CGG>TGG	p.R244W	SLFNL1_uc009vwf.1_Missense_Mutation_p.R244W|SLFNL1_uc001cgn.1_Missense_Mutation_p.R185W|SLFNL1_uc009vwg.1_Missense_Mutation_p.R244W	NM_144990	NP_659427	Q499Z3	SLNL1_HUMAN	schlafen-like 1	244							ATP binding			skin(1)	1	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Breast(333;0.1)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0393)				ACGTAGCGCCGCACGTGGTGC	0.662													4	11					0	0	0.009096	0	0	
FOXJ3	22887	broad.mit.edu	37	1	42664858	42664858	+	Missense_Mutation	SNP	C	T	T	rs146466322		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:42664858C>T	uc001che.2	-	9	986	c.674G>A	c.(673-675)CGC>CAC	p.R225H	FOXJ3_uc001chf.2_Missense_Mutation_p.R225H|FOXJ3_uc001chg.2_Missense_Mutation_p.R225H|FOXJ3_uc001chh.1_Missense_Mutation_p.R191H	NM_014947	NP_055762	Q9UPW0	FOXJ3_HUMAN	forkhead box J3	225					embryo development|organ development|pattern specification process|positive regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein domain specific binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(2)	2	Ovarian(52;0.01)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				AAGGCTACTGCGTGGGCTATC	0.373													18	76					0	0	0.008871	0	0	
LEPRE1	64175	broad.mit.edu	37	1	43213468	43213468	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:43213468C>T	uc001chv.2	-	13	1953	c.1840G>A	c.(1840-1842)GCC>ACC	p.A614T	LEPRE1_uc001chw.2_Missense_Mutation_p.A614T|LEPRE1_uc001chx.3_Missense_Mutation_p.A614T	NM_022356	NP_071751	Q32P28	P3H1_HUMAN	leprecan 1 isoform 1	614	Fe2OG dioxygenase.				negative regulation of cell proliferation	endoplasmic reticulum|proteinaceous extracellular matrix	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 3-dioxygenase activity			ovary(3)|lung(1)	4	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)			L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	TAAAGGATGGCGCTGGGAAAG	0.557													5	94					0	0	0.000602	0	0	
SLC2A1	6513	broad.mit.edu	37	1	43396803	43396803	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:43396803C>T	uc001cik.2	-	3	714	c.189G>A	c.(187-189)ACG>ACA	p.T63T		NM_006516	NP_006507	P11166	GTR1_HUMAN	solute carrier family 2 (facilitated glucose	63	Extracellular (Potential).				carbohydrate metabolic process|energy reserve metabolic process|regulation of insulin secretion|water-soluble vitamin metabolic process	integral to membrane|melanosome|membrane fraction|midbody	D-glucose transmembrane transporter activity|dehydroascorbic acid transporter activity			central_nervous_system(2)|pancreas(2)|ovary(1)	5	Ovarian(52;0.00579)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0122)			Etomidate(DB00292)	GGGACCAGAGCGTGGTGAGCG	0.587											OREG0013425	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	47					0	0	0.000602	0	0	
EBNA1BP2	10969	broad.mit.edu	37	1	43634619	43634619	+	Silent	SNP	G	A	A	rs142130646	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:43634619G>A	uc001cin.2	-	5	725	c.528C>T	c.(526-528)TAC>TAT	p.Y176Y	EBNA1BP2_uc001cio.2_Silent_p.Y231Y|EBNA1BP2_uc001cim.2_Silent_p.Y71Y|EBNA1BP2_uc010ojx.1_Silent_p.Y231Y	NM_006824	NP_006815	Q99848	EBP2_HUMAN	EBNA1 binding protein 2 isoform 2	176					ribosome biogenesis	membrane fraction|nucleolus	protein binding				0	Ovarian(52;0.00579)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				CCTTCTTCCCGTATTTCCTAA	0.493													49	215					0	0	0.003610	0	0	
KIAA0467	23334	broad.mit.edu	37	1	43896333	43896333	+	Silent	SNP	C	T	T	rs149192929	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:43896333C>T	uc001cjk.1	+	17	2412	c.1950C>T	c.(1948-1950)GGC>GGT	p.G650G		NM_015284	NP_056099	Q5T011	SZT2_HUMAN	hypothetical protein LOC23334	1549						peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				TCTTGGGGGGCGACTCACCCA	0.602													27	63					0	0	0.009535	0	0	
KIAA0467	23334	broad.mit.edu	37	1	43904428	43904428	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:43904428G>A	uc001cjk.1	+	32	4332	c.3870G>A	c.(3868-3870)ACG>ACA	p.T1290T		NM_015284	NP_056099	Q5T011	SZT2_HUMAN	hypothetical protein LOC23334	2189						peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				ATGAGGCCACGCTGGACGTCA	0.577													7	18					0	0	0.008291	0	0	
PTPRF	5792	broad.mit.edu	37	1	44086246	44086246	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:44086246C>T	uc001cjr.2	+	31	5700	c.5360C>T	c.(5359-5361)GCC>GTC	p.A1787V	PTPRF_uc001cjs.2_Missense_Mutation_p.A1778V|PTPRF_uc001cju.2_Missense_Mutation_p.A1176V|PTPRF_uc009vwt.2_Missense_Mutation_p.A1347V|PTPRF_uc001cjv.2_Missense_Mutation_p.A1258V|PTPRF_uc001cjw.2_Missense_Mutation_p.A1013V	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	1787	Tyrosine-protein phosphatase 2.|Cytoplasmic (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				GTCACGGATGCCCGGGTGAGT	0.547													22	68					0	0	0.003330	0	0	
KDM4A	9682	broad.mit.edu	37	1	44128589	44128589	+	Missense_Mutation	SNP	C	T	T	rs140820309		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:44128589C>T	uc001cjx.2	+	5	620	c.454C>T	c.(454-456)CGG>TGG	p.R152W	KDM4A_uc010oki.1_Missense_Mutation_p.R152W	NM_014663	NP_055478	O75164	KDM4A_HUMAN	jumonji domain containing 2A	152	JmjC.				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleolus	histone demethylase activity (H3-K36 specific)|nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding	p.R152W(1)		skin(1)	1						GAATATTGGCCGGCTGAGAAC	0.478													17	57					0	0	0.004656	0	0	
KDM4A	9682	broad.mit.edu	37	1	44137305	44137305	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:44137305G>A	uc001cjx.2	+	11	1659	c.1493G>A	c.(1492-1494)CGC>CAC	p.R498H	KDM4A_uc010oki.1_Intron	NM_014663	NP_055478	O75164	KDM4A_HUMAN	jumonji domain containing 2A	498					interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleolus	histone demethylase activity (H3-K36 specific)|nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			skin(1)	1						GTAGGGGGACGCCTTGTCTTC	0.478													30	46					0	0	0.002096	0	0	
B4GALT2	8704	broad.mit.edu	37	1	44446911	44446911	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:44446911G>A	uc001clg.2	+	2	449	c.79G>A	c.(79-81)GCC>ACC	p.A27T	B4GALT2_uc001clh.2_5'UTR|B4GALT2_uc010okl.1_Missense_Mutation_p.A56T|B4GALT2_uc001cli.2_Missense_Mutation_p.A27T	NM_003780	NP_003771	O60909	B4GT2_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	27	Helical; Signal-anchor for type II membrane protein; (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	beta-N-acetylglucosaminylglycopeptide beta-1,4-galactosyltransferase activity|lactose synthase activity|metal ion binding|N-acetyllactosamine synthase activity			ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)			N-Acetyl-D-glucosamine(DB00141)	CTTCCTCGTGGCCGTCATCCT	0.652													13	29					0	0	0.002450	0	0	
SLC6A9	6536	broad.mit.edu	37	1	44467145	44467145	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:44467145C>T	uc001cll.2	-	9	1528	c.1336G>A	c.(1336-1338)GAG>AAG	p.E446K	SLC6A9_uc009vxe.2_Missense_Mutation_p.E302K|SLC6A9_uc010okm.1_Missense_Mutation_p.E373K|SLC6A9_uc001clm.2_Missense_Mutation_p.E392K|SLC6A9_uc009vxd.2_RNA|SLC6A9_uc010okn.1_Missense_Mutation_p.E377K|SLC6A9_uc001cln.2_Missense_Mutation_p.E373K|SLC6A9_uc010oko.1_Missense_Mutation_p.E262K|SLC6A9_uc010okp.1_RNA	NM_201649	NP_964012	P48067	SC6A9_HUMAN	solute carrier family 6 member 9 isoform 2	446						integral to plasma membrane|membrane fraction	glycine:sodium symporter activity|neurotransmitter:sodium symporter activity				0	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)			Glycine(DB00145)	GTGAGGGCCTCGGGGTAAGCC	0.617													13	35					0	0	0.003163	0	0	
RNF220	55182	broad.mit.edu	37	1	44877906	44877906	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:44877906G>A	uc001clv.1	+	2	497	c.137G>A	c.(136-138)CGA>CAA	p.R46Q	RNF220_uc001clw.1_Missense_Mutation_p.R46Q	NM_018150	NP_060620	Q5VTB9	RN220_HUMAN	ring finger protein 220	46					protein autoubiquitination	cytoplasm	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						CAGCAGCCACGACCCTTTGGT	0.557													13	144					0	0	0.001855	0	0	
RNF220	55182	broad.mit.edu	37	1	45110700	45110700	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:45110700C>T	uc001clv.1	+	10	1617	c.1257C>T	c.(1255-1257)GGC>GGT	p.G419G	RNF220_uc001clw.1_Silent_p.G419G|RNF220_uc010oky.1_Silent_p.G206G|RNF220_uc010okz.1_Silent_p.G161G|RNF220_uc001clx.1_Silent_p.G135G|RNF220_uc001cly.1_Silent_p.G98G|RNF220_uc001clz.1_Silent_p.G98G|RNF220_uc001cma.1_Silent_p.G98G|TMEM53_uc001cmb.1_Intron	NM_018150	NP_060620	Q5VTB9	RN220_HUMAN	ring finger protein 220	419					protein autoubiquitination	cytoplasm	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						CCTGCACAGGCGAGGAGCCTG	0.572													6	23					0	0	0.001168	0	0	
BEND5	79656	broad.mit.edu	37	1	49208298	49208298	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:49208298G>T	uc001crx.3	-	4	935	c.891C>A	c.(889-891)GGC>GGA	p.G297G	AGBL4_uc001cru.2_Intron|AGBL4_uc010omw.1_Intron|AGBL4_uc010omx.1_Intron|AGBL4_uc001crv.1_Intron|AGBL4_uc010omy.1_Intron|BEND5_uc001crw.3_Silent_p.G128G	NM_024603	NP_078879	Q7L4P6	BEND5_HUMAN	BEN domain containing 5	297										skin(1)	1						ACACTACCTTGCCATTGTCTA	0.483													22	57					3.8784e-16	4.22562e-16	0.001882	1	0	
FAF1	11124	broad.mit.edu	37	1	51050377	51050377	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:51050377G>A	uc009vyx.1	-	11	1010	c.947C>T	c.(946-948)GCC>GTC	p.A316V	FAF1_uc009vyw.1_Intron|FAF1_uc001cse.1_Missense_Mutation_p.A316V|FAF1_uc010onc.1_Missense_Mutation_p.A74V	NM_007051	NP_008982	Q9UNN5	FAF1_HUMAN	FAS-associated factor 1	316					apoptosis|cytoplasmic sequestering of NF-kappaB|positive regulation of apoptosis|positive regulation of protein complex assembly|proteasomal ubiquitin-dependent protein catabolic process|regulation of protein catabolic process	CD95 death-inducing signaling complex|cytosol|perinuclear region of cytoplasm	heat shock protein binding|NF-kappaB binding|protein kinase binding|protein kinase regulator activity			ovary(1)|pancreas(1)	2				GBM - Glioblastoma multiforme(3;3.18e-11)|all cancers(3;0.00526)		TTTTCTCAAGGCAGATGACGC	0.383													31	100					0	0	0.002445	0	0	
TTC39A	22996	broad.mit.edu	37	1	51767382	51767382	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:51767382G>A	uc001csl.2	-	12	1128	c.1023C>T	c.(1021-1023)TGC>TGT	p.C341C	TTC39A_uc001csk.2_Silent_p.C306C|TTC39A_uc010ond.1_Silent_p.C278C|TTC39A_uc010one.1_Silent_p.C305C|TTC39A_uc010onf.1_Silent_p.C309C|TTC39A_uc001csn.2_Silent_p.C340C|TTC39A_uc001cso.1_3'UTR|TTC39A_uc009vyy.1_Silent_p.C278C	NM_001080494	NP_001073963	Q5SRH9	TT39A_HUMAN	tetratricopeptide repeat domain 39A isoform 2	341	TPR 1.						binding			skin(1)	1						GGGCCTCACAGCACTCCTCGA	0.607													7	21					0	0	0.006214	0	0	
ORC1L	4998	broad.mit.edu	37	1	52861918	52861918	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:52861918G>A	uc001ctt.2	-	5	740	c.521C>T	c.(520-522)GCG>GTG	p.A174V	ORC1L_uc010oni.1_Missense_Mutation_p.A174V|ORC1L_uc001ctu.2_Missense_Mutation_p.A174V|ORC1L_uc009vzd.2_5'UTR	NM_004153	NP_004144	Q13415	ORC1_HUMAN	origin recognition complex, subunit 1	174					cell cycle checkpoint|DNA-dependent DNA replication initiation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle	cytosol|nuclear origin of replication recognition complex|nucleolus|nucleoplasm|plasma membrane	ATP binding|DNA binding|nucleoside-triphosphatase activity|protein binding				0						ATTCAACTCCGCAAATAGTTC	0.463													7	83					0	0	0.003080	0	0	
ZCCHC11	23318	broad.mit.edu	37	1	52954594	52954594	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:52954594C>T	uc001ctx.2	-	9	1736	c.1502G>A	c.(1501-1503)CGC>CAC	p.R501H	ZCCHC11_uc001cty.2_Missense_Mutation_p.R501H|ZCCHC11_uc001ctz.2_Missense_Mutation_p.R501H|ZCCHC11_uc009vze.1_Missense_Mutation_p.R501H|ZCCHC11_uc009vzf.1_Missense_Mutation_p.R260H|ZCCHC11_uc001cub.2_Missense_Mutation_p.R501H|ZCCHC11_uc001cuc.2_RNA	NM_015269	NP_056084	Q5TAX3	TUT4_HUMAN	zinc finger, CCHC domain containing 11 isoform	501					miRNA catabolic process|pre-miRNA processing|RNA 3'-end processing|stem cell maintenance	cytoplasm|nucleolus	nucleic acid binding|protein binding|protein binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)|skin(1)	3						AGCCCAGTAGCGAAAGGCTAA	0.373													10	93					0	0	0.000978	0	0	
CYP2J2	1573	broad.mit.edu	37	1	60375619	60375619	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:60375619A>G	uc001czq.2	-	5	703	c.698T>C	c.(697-699)TTT>TCT	p.F233S		NM_000775	NP_000766	P51589	CP2J2_HUMAN	cytochrome P450, family 2, subfamily J,	233					epoxygenase P450 pathway|linoleic acid metabolic process|regulation of heart contraction|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	arachidonic acid 11,12-epoxygenase activity|arachidonic acid 14,15-epoxygenase activity|aromatase activity|electron carrier activity|heme binding|linoleic acid epoxygenase activity			ovary(1)	1	all_cancers(7;0.000396)					TATCCATGGAAAGACATTGTA	0.343													5	52					0	0	0.000602	0	0	
INADL	10207	broad.mit.edu	37	1	62293227	62293227	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:62293227G>A	uc001dab.2	+	16	2066	c.1952G>A	c.(1951-1953)CGC>CAC	p.R651H	INADL_uc009waf.1_Missense_Mutation_p.R651H|INADL_uc001daa.2_Missense_Mutation_p.R651H|INADL_uc001dad.3_Missense_Mutation_p.R348H|INADL_uc001dac.2_RNA	NM_176877	NP_795352	Q8NI35	INADL_HUMAN	InaD-like	651					intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4						GAACCAAGGCGCACTGAAACC	0.463													26	115					0	0	0.006320	0	0	
DOCK7	85440	broad.mit.edu	37	1	62993865	62993865	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:62993865A>G	uc001daq.2	-	31	3927	c.3893T>C	c.(3892-3894)GTC>GCC	p.V1298A	DOCK7_uc001dan.2_Missense_Mutation_p.V1159A|DOCK7_uc001dao.2_Missense_Mutation_p.V1159A|DOCK7_uc001dap.2_Missense_Mutation_p.V1267A|DOCK7_uc001dam.2_Missense_Mutation_p.V478A|DOCK7_uc010oov.1_Intron	NM_033407	NP_212132	Q96N67	DOCK7_HUMAN	dedicator of cytokinesis 7	1298					activation of Rac GTPase activity|axonogenesis|establishment of neuroblast polarity|microtubule cytoskeleton organization|positive regulation of peptidyl-serine phosphorylation	axon|basal part of cell|growth cone	GTP binding|guanyl-nucleotide exchange factor activity|Rac GTPase binding			ovary(2)	2						TAGTTGAGGGACCGATGTCCC	0.433													12	37					0	0	0.002450	0	0	
DOCK7	85440	broad.mit.edu	37	1	63113777	63113777	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:63113777C>T	uc001daq.2	-	6	766	c.732G>A	c.(730-732)GAG>GAA	p.E244E	DOCK7_uc001dan.2_Silent_p.E136E|DOCK7_uc001dao.2_Silent_p.E136E|DOCK7_uc001dap.2_Silent_p.E244E|DOCK7_uc009wah.1_Silent_p.E244E	NM_033407	NP_212132	Q96N67	DOCK7_HUMAN	dedicator of cytokinesis 7	244					activation of Rac GTPase activity|axonogenesis|establishment of neuroblast polarity|microtubule cytoskeleton organization|positive regulation of peptidyl-serine phosphorylation	axon|basal part of cell|growth cone	GTP binding|guanyl-nucleotide exchange factor activity|Rac GTPase binding			ovary(2)	2						ACATCTATACCTCATCTGGTG	0.323													11	98					0	0	0.001368	0	0	
ITGB3BP	23421	broad.mit.edu	37	1	63912521	63912521	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:63912521C>T	uc001dba.1	-	8	522	c.491G>A	c.(490-492)CGT>CAT	p.R164H	ITGB3BP_uc001dbb.1_Missense_Mutation_p.R203H|ITGB3BP_uc001dbc.1_RNA|ITGB3BP_uc001dbd.1_Intron	NM_014288	NP_055103	Q13352	CENPR_HUMAN	integrin beta 3 binding protein	164					apoptosis|cell adhesion|CenH3-containing nucleosome assembly at centromere|induction of apoptosis by extracellular signals|mitotic prometaphase|nerve growth factor receptor signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome, centromeric region|cytosol|membrane fraction|nucleoplasm	protein C-terminus binding|signal transducer activity				0						GTCAAGATGACGTGATGCTAT	0.313													13	46					0	0	0.003163	0	0	
EFCAB7	84455	broad.mit.edu	37	1	63991248	63991248	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:63991248C>T	uc001dbf.2	+	2	299	c.5C>T	c.(4-6)GCG>GTG	p.A2V	ITGB3BP_uc001dba.1_5'Flank|ITGB3BP_uc001dbb.1_5'Flank|ITGB3BP_uc001dbc.1_5'Flank|ITGB3BP_uc001dbd.1_5'Flank|ITGB3BP_uc009wak.1_5'Flank	NM_032437	NP_115813	A8K855	EFCB7_HUMAN	EF-hand calcium binding domain 7	2							calcium ion binding				0						AATAGAATGGCGATCAGTCCA	0.368													18	72					0	0	0.010504	0	0	
EFCAB7	84455	broad.mit.edu	37	1	63999206	63999206	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:63999206C>T	uc001dbf.2	+	5	862	c.568C>T	c.(568-570)CGT>TGT	p.R190C		NM_032437	NP_115813	A8K855	EFCB7_HUMAN	EF-hand calcium binding domain 7	190							calcium ion binding				0						TAAATTGATGCGTCACCAGTT	0.393													12	199					0	0	0.001368	0	0	
EFCAB7	84455	broad.mit.edu	37	1	64034139	64034139	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:64034139C>T	uc001dbf.2	+	12	1950	c.1656C>T	c.(1654-1656)ATC>ATT	p.I552I		NM_032437	NP_115813	A8K855	EFCB7_HUMAN	EF-hand calcium binding domain 7	552							calcium ion binding				0						AAAATATAATCGTGCATACTT	0.378													10	48					0	0	0.001368	0	0	
CACHD1	57685	broad.mit.edu	37	1	65138932	65138932	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:65138932A>G	uc001dbo.1	+	18	2554	c.2449A>G	c.(2449-2451)ACC>GCC	p.T817A	CACHD1_uc001dbp.1_Missense_Mutation_p.T572A|CACHD1_uc001dbq.1_Missense_Mutation_p.T572A|CACHD1_uc010opa.1_Missense_Mutation_p.T61A	NM_020925	NP_065976	Q5VU97	CAHD1_HUMAN	cache domain containing 1	868	Extracellular (Potential).				calcium ion transport	integral to membrane				ovary(2)	2						GCAGCACATCACCCACAAGGT	0.522													5	128					0	0	0.001168	0	0	
JAK1	3716	broad.mit.edu	37	1	65344791	65344791	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:65344791G>A	uc001dbu.1	-	4	495	c.246C>T	c.(244-246)GAC>GAT	p.D82D	JAK1_uc009wam.1_Silent_p.D70D|JAK1_uc001dbv.2_5'Flank	NM_002227	NP_002218	P23458	JAK1_HUMAN	janus kinase 1	82	FERM.				interferon-gamma-mediated signaling pathway|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to antibiotic|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|endomembrane system|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			haematopoietic_and_lymphoid_tissue(34)|prostate(7)|soft_tissue(6)|lung(4)|breast(3)|central_nervous_system(2)|liver(2)|large_intestine(1)|stomach(1)|ovary(1)	61				BRCA - Breast invasive adenocarcinoma(111;0.0485)		TGGTGTTCTCGTCATACAGGG	0.468			Mis		ALL								8	74					0	0	0.004482	0	0	
DNAJC6	9829	broad.mit.edu	37	1	65851520	65851520	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:65851520G>A	uc001dcd.1	+	7	919	c.755G>A	c.(754-756)CGC>CAC	p.R252H	DNAJC6_uc001dcc.1_Missense_Mutation_p.R283H|DNAJC6_uc010opc.1_Missense_Mutation_p.R239H|DNAJC6_uc001dce.1_Missense_Mutation_p.R309H	NM_014787	NP_055602	O75061	AUXI_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 6	252	C2 tensin-type.				cellular membrane organization|post-Golgi vesicle-mediated transport	cytosol	heat shock protein binding|protein tyrosine phosphatase activity|SH3 domain binding			large_intestine(1)|lung(1)|ovary(1)	3						AATGGATGTCGCCCTTACTGT	0.418													25	54					0	0	0.007291	0	0	
IL23R	149233	broad.mit.edu	37	1	67724598	67724598	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:67724598T>G	uc001ddo.2	+	11	1762	c.1677T>G	c.(1675-1677)AGT>AGG	p.S559R	IL23R_uc009waz.2_Missense_Mutation_p.S356R|IL23R_uc010opi.1_RNA|IL23R_uc010opj.1_Missense_Mutation_p.S157R|IL23R_uc010opk.1_3'UTR|IL23R_uc010opl.1_Missense_Mutation_p.S141R|IL23R_uc010opm.1_RNA|IL23R_uc001ddq.2_Missense_Mutation_p.S305R|IL23R_uc010opn.1_Missense_Mutation_p.S404R|IL23R_uc001ddr.2_RNA|IL23R_uc010ops.1_Missense_Mutation_p.S356R|IL23R_uc010opt.1_Missense_Mutation_p.S200R|IL23R_uc010opu.1_Missense_Mutation_p.S255R|IL23R_uc010opv.1_Missense_Mutation_p.S317R|IL23R_uc010opw.1_Missense_Mutation_p.S194R|IL23R_uc010opx.1_Missense_Mutation_p.S200R|IL23R_uc010opy.1_Missense_Mutation_p.S326R|IL23R_uc010opz.1_Missense_Mutation_p.S200R|IL23R_uc010oqa.1_Missense_Mutation_p.S200R|IL23R_uc010oqb.1_Missense_Mutation_p.S388R|IL23R_uc010oqc.1_Missense_Mutation_p.S275R|IL23R_uc010oqd.1_Missense_Mutation_p.S194R|IL23R_uc010oqe.1_Missense_Mutation_p.S157R|IL23R_uc010oqf.1_Missense_Mutation_p.S157R|IL23R_uc010oqg.1_Missense_Mutation_p.S157R|IL23R_uc010oqh.1_Missense_Mutation_p.S200R|IL23R_uc001dds.2_Missense_Mutation_p.S304R|IL23R_uc001ddt.2_Missense_Mutation_p.S157R	NM_144701	NP_653302	Q5VWK5	IL23R_HUMAN	interleukin 23 receptor precursor	559	Cytoplasmic (Potential).				inflammatory response|negative regulation of interleukin-10 production|positive regulation of defense response to virus by host|positive regulation of interferon-gamma production|positive regulation of interleukin-12 production|positive regulation of memory T cell differentiation|positive regulation of T cell mediated cytotoxicity|positive regulation of T-helper 1 type immune response|positive regulation of T-helper 17 cell lineage commitment|positive regulation of T-helper 17 type immune response|response to interferon-gamma|response to lipopolysaccharide	interleukin-23 receptor complex	receptor activity				0						GAGAATGCAGTTCTCCTGACA	0.383													29	74					0	0	0.009535	0	0	
IL12RB2	3595	broad.mit.edu	37	1	67838350	67838350	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:67838350A>G	uc001ddu.2	+	12	2241	c.1601A>G	c.(1600-1602)AAG>AGG	p.K534R	IL12RB2_uc010oqi.1_Missense_Mutation_p.K534R|IL12RB2_uc010oqj.1_Missense_Mutation_p.K534R|IL12RB2_uc010oqk.1_RNA|IL12RB2_uc010oql.1_Intron|IL12RB2_uc010oqm.1_Missense_Mutation_p.K534R|IL12RB2_uc010oqn.1_Intron	NM_001559	NP_001550	Q99665	I12R2_HUMAN	interleukin 12 receptor, beta 2 precursor	534	Fibronectin type-III 5.|Extracellular (Potential).				positive regulation of cell proliferation|positive regulation of interferon-gamma production	integral to plasma membrane	cytokine receptor activity			ovary(2)|central_nervous_system(1)	3						ACAGAGGAAAAGGGGAGCATT	0.478													25	53					0	0	0.003330	0	0	
WLS	79971	broad.mit.edu	37	1	68659743	68659743	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:68659743A>C	uc001def.1	-	2	545	c.274T>G	c.(274-276)TTT>GTT	p.F92V	uc001deb.1_Intron|uc001dec.1_Intron|WLS_uc001dee.2_Missense_Mutation_p.F90V|WLS_uc001deg.1_Intron|WLS_uc001deh.1_Missense_Mutation_p.F92V|WLS_uc009wbf.1_Missense_Mutation_p.F47V	NM_024911	NP_079187	Q5T9L3	WLS_HUMAN	G protein-coupled receptor 177 isoform 1	92	Lumenal (Potential).				multicellular organismal development|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Wnt receptor signaling pathway	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	signal transducer activity				0						TGAACAGAAAACACGATGTCA	0.463													18	47					0	0	0.002299	0	0	
RPE65	6121	broad.mit.edu	37	1	68912408	68912408	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:68912408A>T	uc001dei.1	-	3	284	c.230T>A	c.(229-231)GTC>GAC	p.V77D		NM_000329	NP_000320	Q16518	RPE65_HUMAN	retinal pigment epithelium-specific protein	77					visual perception	cytoplasm|plasma membrane	all-trans-retinyl-palmitate hydrolase activity|metal ion binding|retinol isomerase activity			ovary(1)	1						GTGGTATGTGACATGTCCTTC	0.502													10	37					0	0	0.001368	0	0	
LRRC7	57554	broad.mit.edu	37	1	70478695	70478695	+	Silent	SNP	C	T	T	rs149111202	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:70478695C>T	uc001dep.2	+	11	1089	c.1059C>T	c.(1057-1059)CGC>CGT	p.R353R	LRRC7_uc009wbg.2_5'UTR	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	353	LRR 15.					centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						TGTCTCTACGCTCCAACAAAT	0.313													26	103					0	0	0.005443	0	0	
SFRS11	9295	broad.mit.edu	37	1	70700384	70700384	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:70700384C>T	uc001des.2	+	5	577	c.453C>T	c.(451-453)GGC>GGT	p.G151G	SFRS11_uc001det.2_Silent_p.G151G|SFRS11_uc001deu.2_Silent_p.G151G|SFRS11_uc001dev.2_5'UTR|SFRS11_uc001dew.2_Silent_p.G91G	NM_004768	NP_004759	Q05519	SRS11_HUMAN	splicing factor, arginine/serine-rich 11	151					mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nucleoplasm	nucleotide binding|protein binding|RNA binding				0						CACAGATTGGCGCTGTTCCAC	0.343													4	35					0	0	0.001855	0	0	
ANKRD13C	81573	broad.mit.edu	37	1	70766510	70766510	+	Silent	SNP	C	T	T	rs138861589		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:70766510C>T	uc001dex.3	-	7	1184	c.858G>A	c.(856-858)GCG>GCA	p.A286A	ANKRD13C_uc009wbk.2_Silent_p.A251A	NM_030816	NP_110443	Q8N6S4	AN13C_HUMAN	ankyrin repeat domain 13C	286					protein retention in ER lumen|regulation of anoikis|regulation of receptor biosynthetic process	endoplasmic reticulum membrane|perinuclear region of cytoplasm	receptor binding				0						ATTCAGAGGGCGCCGCATCCC	0.393													9	20					0	0	0.008291	0	0	
MSH4	4438	broad.mit.edu	37	1	76272758	76272758	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:76272758G>A	uc001dhd.1	+	3	561	c.520G>A	c.(520-522)GCA>ACA	p.A174T		NM_002440	NP_002431	O15457	MSH4_HUMAN	mutS homolog 4	174					chiasma assembly|homologous chromosome segregation|mismatch repair|reciprocal meiotic recombination	synaptonemal complex	ATP binding|DNA-dependent ATPase activity|mismatched DNA binding			lung(3)|ovary(2)	5						AATAGGAATGGCAAGTATTGA	0.383								MMR					6	75					0	0	0.003080	0	0	
MSH4	4438	broad.mit.edu	37	1	76272778	76272778	+	Missense_Mutation	SNP	C	A	A	rs144700439	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:76272778C>A	uc001dhd.1	+	3	581	c.540C>A	c.(538-540)AAC>AAA	p.N180K		NM_002440	NP_002431	O15457	MSH4_HUMAN	mutS homolog 4	180					chiasma assembly|homologous chromosome segregation|mismatch repair|reciprocal meiotic recombination	synaptonemal complex	ATP binding|DNA-dependent ATPase activity|mismatched DNA binding			lung(3)|ovary(2)	5						ATTTAAAAAACCCCCAAATTA	0.393								MMR					22	77					5.35356e-11	5.77141e-11	0.002780	1	0	
ST6GALNAC3	256435	broad.mit.edu	37	1	76877955	76877955	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:76877955G>A	uc001dhh.2	+	3	639	c.476G>A	c.(475-477)CGC>CAC	p.R159H	ST6GALNAC3_uc001dhg.3_Missense_Mutation_p.R159H|ST6GALNAC3_uc010orh.1_Missense_Mutation_p.R94H	NM_152996	NP_694541	Q8NDV1	SIA7C_HUMAN	sialyltransferase 7C isoform 1	159	Lumenal (Potential).				protein glycosylation	integral to Golgi membrane	sialyltransferase activity			ovary(3)|skin(2)	5						GGACCTTTCCGCAATATGAGG	0.408													7	106					0	0	0.003080	0	0	
USP33	23032	broad.mit.edu	37	1	78187762	78187762	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:78187762G>A	uc001dht.2	-	14	1949	c.1602C>T	c.(1600-1602)GGC>GGT	p.G534G	USP33_uc001dhs.2_Silent_p.G255G|USP33_uc001dhu.2_Silent_p.G503G|USP33_uc001dhv.2_Silent_p.G339G|USP33_uc001dhw.2_Silent_p.G534G	NM_015017	NP_055832	Q8TEY7	UBP33_HUMAN	ubiquitin specific protease 33 isoform 1	534					axon guidance|cell migration|endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm|VCB complex	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(2)|ovary(1)	3						CATATGCTTCGCCACATGATC	0.398													20	61					0	0	0.001882	0	0	
FAM73A	374986	broad.mit.edu	37	1	78272690	78272690	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:78272690G>A	uc001dhx.2	+	5	573	c.541G>A	c.(541-543)GCT>ACT	p.A181T	FAM73A_uc010ork.1_Missense_Mutation_p.A181T|FAM73A_uc010orl.1_Missense_Mutation_p.A143T|FAM73A_uc001dhy.1_5'UTR	NM_198549	NP_940951	Q8NAN2	FA73A_HUMAN	hypothetical protein LOC374986	181						integral to membrane				ovary(1)	1				Colorectal(170;0.226)		TCATAGCTGCGCTTGTGGCAA	0.348													7	118					0	0	0.004482	0	0	
NEXN	91624	broad.mit.edu	37	1	78383873	78383873	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:78383873C>T	uc001dic.3	+	5	659	c.362C>T	c.(361-363)ACG>ATG	p.T121M	NEXN_uc001dia.3_Missense_Mutation_p.T121M|NEXN_uc009wcb.1_Missense_Mutation_p.T57M|NEXN_uc001dib.3_Missense_Mutation_p.T57M|NEXN_uc001did.1_Missense_Mutation_p.T45M|NEXN_uc001dif.1_Missense_Mutation_p.T13M	NM_144573	NP_653174	Q0ZGT2	NEXN_HUMAN	nexilin (F actin binding protein)	121	Glu-rich.				regulation of cell migration|regulation of cytoskeleton organization	cytoskeleton|Z disc	actin filament binding|structural constituent of muscle			ovary(2)	2				Colorectal(170;0.114)		AGGAAGAGAACGGAGGAGGAA	0.368													6	113					0	0	0.001984	0	0	
IFI44	10561	broad.mit.edu	37	1	79128420	79128420	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:79128420C>A	uc001dip.3	+	8	1269	c.1145C>A	c.(1144-1146)GCT>GAT	p.A382D		NM_006417	NP_006408	Q8TCB0	IFI44_HUMAN	interferon-induced, hepatitis C-associated	382					response to virus	cytoplasm				ovary(1)|central_nervous_system(1)	2						CTTGGATTTGCTCTTTCTGAC	0.358													16	57					3.52763e-06	3.73207e-06	0.004990	1	0	
RPF1	80135	broad.mit.edu	37	1	84961086	84961086	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:84961086G>A	uc001djv.3	+	6	692	c.647G>A	c.(646-648)GGC>GAC	p.G216D		NM_025065	NP_079341	Q9H9Y2	RPF1_HUMAN	RNA processing factor 1	216	Brix.				rRNA processing|translation	nucleolus	aminoacyl-tRNA ligase activity|ATP binding|rRNA binding				0						TTGCCAAATGGCCCAACTGCT	0.313													6	36					0	0	0.004482	0	0	
WDR63	126820	broad.mit.edu	37	1	85559307	85559307	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:85559307G>A	uc001dkt.2	+	9	1215	c.1024G>A	c.(1024-1026)GTC>ATC	p.V342I	WDR63_uc009wcl.2_Missense_Mutation_p.V303I	NM_145172	NP_660155	Q8IWG1	WDR63_HUMAN	WD repeat domain 63	342										upper_aerodigestive_tract(2)|ovary(2)|skin(1)	5				all cancers(265;0.00391)|Epithelial(280;0.00922)|Colorectal(170;0.166)		GATTACCTGTGTCTCATGGCA	0.423													44	130					0	0	0.003214	0	0	
COL24A1	255631	broad.mit.edu	37	1	86590944	86590944	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:86590944C>T	uc001dlj.2	-	3	1117	c.1075G>A	c.(1075-1077)GCA>ACA	p.A359T	COL24A1_uc010osd.1_5'UTR|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA|COL24A1_uc009wcq.2_Missense_Mutation_p.A359T	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	359					cell adhesion	collagen	extracellular matrix structural constituent			ovary(3)|central_nervous_system(1)|skin(1)	5				all cancers(265;0.0627)|Epithelial(280;0.0689)		TTCATTTTTGCCTCACTGATG	0.403													6	86					0	0	0.001984	0	0	
COL24A1	255631	broad.mit.edu	37	1	86591810	86591810	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:86591810G>A	uc001dlj.2	-	3	251	c.209C>T	c.(208-210)CCG>CTG	p.P70L	COL24A1_uc010osd.1_5'UTR|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA|COL24A1_uc009wcq.2_Missense_Mutation_p.P70L	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	70	TSP N-terminal.				cell adhesion	collagen	extracellular matrix structural constituent			ovary(3)|central_nervous_system(1)|skin(1)	5				all cancers(265;0.0627)|Epithelial(280;0.0689)		CTGAGGTAACGGTGTAGATGC	0.418													18	65					0	0	0.006122	0	0	
CLCA2	9635	broad.mit.edu	37	1	86900199	86900199	+	Splice_Site	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:86900199A>G	uc001dlr.3	+	6	907	c.745_splice	c.e6-2	p.V249_splice		NM_006536	NP_006527	Q9UQC9	CLCA2_HUMAN	chloride channel accessory 2 precursor						cell adhesion	basal plasma membrane|cell junction|extracellular region|integral to plasma membrane	chloride channel activity			ovary(1)|breast(1)|skin(1)	3		Lung NSC(277;0.238)		all cancers(265;0.0233)|Epithelial(280;0.0452)		TTTTATTTCCAGGTGGTTGAA	0.398													23	42					0	0	0.002299	0	0	
SEP15	9403	broad.mit.edu	37	1	87333766	87333766	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:87333766T>C	uc010osi.1	-	5	649	c.336A>G	c.(334-336)AAA>AAG	p.K112K	SEP15_uc010osj.1_Intron	NM_004261	NP_004252	O60613	SEP15_HUMAN	15 kDa selenoprotein isoform 1 precursor	109					'de novo' posttranslational protein folding	endoplasmic reticulum lumen	selenium binding				0		Lung NSC(277;0.153)		all cancers(265;0.00744)|Epithelial(280;0.0333)		ACAGTTTGGGTTTATCACTCC	0.279													19	47					0	0	0.003330	0	0	
HS2ST1	9653	broad.mit.edu	37	1	87538675	87538675	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:87538675C>T	uc010osk.1	+	2	568	c.183C>T	c.(181-183)GGC>GGT	p.G61G	HS2ST1_uc001dmc.3_Silent_p.G61G|LOC339524_uc001dme.1_Silent_p.G22G	NM_012262	NP_036394	Q7LGA3	HS2ST_HUMAN	heparan sulfate 2-O-sulfotransferase 1 isoform	61	Lumenal (Potential).					Golgi membrane|integral to membrane				central_nervous_system(1)	1		Lung NSC(277;0.153)		all cancers(265;0.00699)|Epithelial(280;0.0261)		CAATGGATGGCCCTCGGCAAG	0.428													14	40					0	0	0.007413	0	0	
RBMXL1	494115	broad.mit.edu	37	1	89448926	89448926	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:89448926C>T	uc009wcx.2	-	3	1300	c.584G>A	c.(583-585)CGA>CAA	p.R195Q	CCBL2_uc001dmp.2_Intron|CCBL2_uc001dmq.2_Intron|CCBL2_uc001dmr.2_Intron|RBMXL1_uc001dms.2_Missense_Mutation_p.R195Q	NM_001162536	NP_001156008	Q96E39	RBMXL_HUMAN	RNA binding motif protein, X-linked-like 1	195							nucleotide binding|RNA binding				0						CGGTTCCCTTCGAGGTGGACC	0.483													6	170					0	0	0.001168	0	0	
GBP7	388646	broad.mit.edu	37	1	89630432	89630432	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:89630432G>A	uc001dna.2	-	3	439	c.300C>T	c.(298-300)GGC>GGT	p.G100G		NM_207398	NP_997281	Q8N8V2	GBP7_HUMAN	guanylate binding protein 4-like	100	GTP (By similarity).					integral to membrane	GTP binding|GTPase activity			ovary(1)|skin(1)	2		Lung NSC(277;0.0908)		all cancers(265;0.00835)|Epithelial(280;0.0322)		TATCACCCAGGCCCTCCGTGT	0.453													5	69					0	0	0.000602	0	0	
GBP6	163351	broad.mit.edu	37	1	89847396	89847396	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:89847396G>A	uc001dnf.2	+	7	1289	c.1015G>A	c.(1015-1017)GCC>ACC	p.A339T	GBP6_uc010ost.1_Missense_Mutation_p.A209T	NM_198460	NP_940862	Q6ZN66	GBP6_HUMAN	guanylate binding protein family, member 6	339							GTP binding|GTPase activity			ovary(2)	2		Lung NSC(277;0.0908)		all cancers(265;0.0108)|Epithelial(280;0.0398)		CCAGCAGATGGCCCAGCGAGT	0.587													6	48					0	0	0.003080	0	0	
LRRC8D	55144	broad.mit.edu	37	1	90398905	90398905	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:90398905G>A	uc001dnm.2	+	3	703	c.278G>A	c.(277-279)CGG>CAG	p.R93Q	LRRC8D_uc001dnn.2_Missense_Mutation_p.R93Q	NM_001134479	NP_001127951	Q7L1W4	LRC8D_HUMAN	leucine rich repeat containing 8 family, member	93						integral to membrane	protein binding			ovary(2)	2		all_lung(203;0.0894)|Lung NSC(277;0.227)		all cancers(265;0.0109)|Epithelial(280;0.0427)		CAAGATGGGCGGACAACAAAC	0.498													14	34					0	0	0.002450	0	0	
LRRC8D	55144	broad.mit.edu	37	1	90400837	90400837	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:90400837G>A	uc001dnm.2	+	3	2635	c.2210G>A	c.(2209-2211)AGC>AAC	p.S737N	LRRC8D_uc001dnn.2_Missense_Mutation_p.S737N	NM_001134479	NP_001127951	Q7L1W4	LRC8D_HUMAN	leucine rich repeat containing 8 family, member	737	LRR 10.					integral to membrane	protein binding			ovary(2)	2		all_lung(203;0.0894)|Lung NSC(277;0.227)		all cancers(265;0.0109)|Epithelial(280;0.0427)		TTAGATGTGAGCTACAACAAC	0.378													17	76					0	0	0.004007	0	0	
HFM1	164045	broad.mit.edu	37	1	91818691	91818691	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:91818691G>T	uc001doa.3	-	15	1848	c.1748C>A	c.(1747-1749)GCT>GAT	p.A583D	HFM1_uc009wdb.2_5'Flank|HFM1_uc010osu.1_Missense_Mutation_p.A262D|HFM1_uc010osv.1_Missense_Mutation_p.A267D	NM_001017975	NP_001017975	A2PYH4	HFM1_HUMAN	HFM1 protein	583	Helicase C-terminal.						ATP binding|ATP-dependent helicase activity|nucleic acid binding				0		all_lung(203;0.00961)|Lung NSC(277;0.0351)		all cancers(265;0.000481)|Epithelial(280;0.00863)|OV - Ovarian serous cystadenocarcinoma(397;0.126)|KIRC - Kidney renal clear cell carcinoma(1967;0.171)		ATGATAAGCAGCACCATCTTT	0.318													15	52					4.14922e-12	4.48789e-12	0.004007	1	0	
HFM1	164045	broad.mit.edu	37	1	91844024	91844024	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:91844024C>T	uc001doa.3	-	10	1272	c.1172G>A	c.(1171-1173)AGC>AAC	p.S391N	HFM1_uc010osu.1_Missense_Mutation_p.S70N|HFM1_uc010osv.1_Missense_Mutation_p.S75N|HFM1_uc001doc.1_Missense_Mutation_p.S391N	NM_001017975	NP_001017975	A2PYH4	HFM1_HUMAN	HFM1 protein	391	Helicase ATP-binding.						ATP binding|ATP-dependent helicase activity|nucleic acid binding				0		all_lung(203;0.00961)|Lung NSC(277;0.0351)		all cancers(265;0.000481)|Epithelial(280;0.00863)|OV - Ovarian serous cystadenocarcinoma(397;0.126)|KIRC - Kidney renal clear cell carcinoma(1967;0.171)		CCTAGTCATGCTATCCCATTT	0.313													7	90					0	0	0.003080	0	0	
CDC7	8317	broad.mit.edu	37	1	91977470	91977470	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:91977470C>T	uc001doe.2	+	6	727	c.562C>T	c.(562-564)CGC>TGC	p.R188C	CDC7_uc001dof.2_Missense_Mutation_p.R188C|CDC7_uc010osw.1_Missense_Mutation_p.R160C|CDC7_uc009wdc.2_Missense_Mutation_p.R188C|CDC7_uc009wdd.2_5'Flank	NM_003503	NP_003494	O00311	CDC7_HUMAN	cell division cycle 7	188	Protein kinase.				cell cycle checkpoint|cell division|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|positive regulation of cell proliferation|regulation of S phase	cytoplasm|nucleoplasm	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			stomach(2)|large_intestine(1)|ovary(1)|central_nervous_system(1)	5		all_lung(203;0.0165)|Lung NSC(277;0.0562)		all cancers(265;0.00108)|Epithelial(280;0.0184)|KIRC - Kidney renal clear cell carcinoma(1967;0.124)		ATATAATAGGCGCCTGAAAAA	0.254													8	17					0	0	0.001368	0	0	
KIAA1107	23285	broad.mit.edu	37	1	92643912	92643912	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:92643912C>T	uc010otd.1	+	7	1269	c.1171C>T	c.(1171-1173)CCA>TCA	p.P391S	KIAA1107_uc001dop.2_Missense_Mutation_p.P316S	NM_015237	NP_056052	Q9UPP5	K1107_HUMAN	hypothetical protein LOC23285	446											0						TGAGCCAGTACCACAGGCAAT	0.363													3	5					0	0	0.009096	0	0	
GLMN	11146	broad.mit.edu	37	1	92737086	92737086	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:92737086C>T	uc001dor.2	-	8	974	c.859G>A	c.(859-861)GCT>ACT	p.A287T	GLMN_uc009wdg.2_RNA|GLMN_uc001dos.2_Missense_Mutation_p.A287T	NM_053274	NP_444504	Q92990	GLMN_HUMAN	glomulin	287	Potential.				muscle cell differentiation|negative regulation of T cell proliferation|positive regulation of cytokine secretion|positive regulation of interleukin-2 biosynthetic process|positive regulation of phosphorylation|regulation of gene expression, epigenetic|vasculogenesis	intracellular	hepatocyte growth factor receptor binding			skin(1)	1		all_lung(203;0.00827)|Lung NSC(277;0.0295)		all cancers(265;0.00702)|GBM - Glioblastoma multiforme(16;0.0381)|Epithelial(280;0.0989)		GCCAGAGAAGCCATTGAGTCT	0.348									Multiple_Glomus_Tumors_(of_the_Skin)_Familial				7	90					0	0	0.004482	0	0	
MTF2	22823	broad.mit.edu	37	1	93584943	93584943	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:93584943G>A	uc009wdj.2	+	8	1074	c.782G>A	c.(781-783)CGT>CAT	p.R261H	MTF2_uc001dph.2_Missense_Mutation_p.R159H|MTF2_uc010oth.1_Missense_Mutation_p.R159H|MTF2_uc009wdk.2_Missense_Mutation_p.R261H|MTF2_uc001dpi.3_Silent_p.T29T|MTF2_uc010oti.1_Missense_Mutation_p.R159H|MTF2_uc001dpj.3_Missense_Mutation_p.R159H|MTF2_uc001dpl.3_Missense_Mutation_p.R159H	NM_007358	NP_031384	Q9Y483	MTF2_HUMAN	metal response element binding transcription	261						nucleus	DNA binding|zinc ion binding			ovary(2)	2		all_lung(203;0.00196)|Lung NSC(277;0.00902)|Melanoma(281;0.099)|Ovarian(761;0.109)|all_neural(321;0.185)|Glioma(108;0.203)		all cancers(265;0.00076)|GBM - Glioblastoma multiforme(16;0.00157)|Epithelial(280;0.0886)		TACCTCAAACGTCTACCATTA	0.323													12	34					0	0	0.003163	0	0	
BCAR3	8412	broad.mit.edu	37	1	94140374	94140374	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:94140374C>T	uc001dpz.2	-	2	388	c.113G>A	c.(112-114)CGC>CAC	p.R38H	BCAR3_uc001dqa.2_Missense_Mutation_p.R38H|BCAR3_uc001dqb.2_Missense_Mutation_p.R38H	NM_003567	NP_003558	O75815	BCAR3_HUMAN	breast cancer antiestrogen resistance 3	38					response to drug|small GTPase mediated signal transduction	intracellular	guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|lung(1)|central_nervous_system(1)	3		all_lung(203;0.00145)|Lung NSC(277;0.00662)		all cancers(265;0.0126)|GBM - Glioblastoma multiforme(16;0.0467)|Epithelial(280;0.166)		GGCATCTGGGCGATGCTCAGC	0.532													4	39					0	0	0.009096	0	0	
GCLM	2730	broad.mit.edu	37	1	94360188	94360188	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:94360188T>C	uc001dqg.1	-	6	930	c.637A>G	c.(637-639)ACT>GCT	p.T213A		NM_002061	NP_002052	P48507	GSH0_HUMAN	glutamate-cysteine ligase regulatory protein	213					glutamate metabolic process|glutathione biosynthetic process|regulation of blood vessel size|response to drug|response to oxidative stress|xenobiotic metabolic process	cytosol|soluble fraction	glutamate-cysteine ligase catalytic subunit binding			ovary(1)	1		all_lung(203;0.000815)|Lung NSC(277;0.00363)		all cancers(265;0.00566)|GBM - Glioblastoma multiforme(16;0.0203)|Epithelial(280;0.131)	L-Cysteine(DB00151)|L-Glutamic Acid(DB00142)	TCATTGTGAGTCAACAGCTGT	0.323													28	68					0	0	0.007291	0	0	
ALG14	199857	broad.mit.edu	37	1	95448750	95448750	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:95448750A>G	uc001dra.2	-	4	586	c.533T>C	c.(532-534)GTA>GCA	p.V178A		NM_144988	NP_659425	Q96F25	ALG14_HUMAN	asparagine-linked glycosylation 14 homolog	178	Cytoplasmic (Potential).				dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	N-acetylglucosaminyldiphosphodolichol N-acetylglucosaminyltransferase activity				0		all_lung(203;0.0232)|Lung NSC(277;0.0739)		all cancers(265;0.0615)|Epithelial(280;0.139)		TAACGTTTCTACACGGCAGAT	0.433													27	73					0	0	0.006320	0	0	
LPPR5	163404	broad.mit.edu	37	1	99380468	99380468	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:99380468G>A	uc001dsb.2	-	5	1029	c.807C>T	c.(805-807)TGC>TGT	p.C269C	LPPR5_uc001dsc.2_Silent_p.C269C	NM_001037317	NP_001032394	Q32ZL2	LPPR5_HUMAN	phosphatidic acid phosphatase type 2d isoform 1	269	Helical; (Potential).					integral to membrane	hydrolase activity				0						TATTCACCACGCACACAACCT	0.393													11	149					0	0	0.003163	0	0	
AGL	178	broad.mit.edu	37	1	100340251	100340251	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:100340251C>T	uc001dsi.1	+	8	1367	c.967C>T	c.(967-969)CGA>TGA	p.R323*	AGL_uc001dsj.1_Nonsense_Mutation_p.R323*|AGL_uc001dsk.1_Nonsense_Mutation_p.R323*|AGL_uc001dsl.1_Nonsense_Mutation_p.R323*|AGL_uc001dsm.1_Nonsense_Mutation_p.R307*|AGL_uc001dsn.1_Nonsense_Mutation_p.R306*	NM_000642	NP_000633	P35573	GDE_HUMAN	amylo-1,6-glucosidase,	323	4-alpha-glucanotransferase.				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|isoamylase complex|nucleus	4-alpha-glucanotransferase activity|amylo-alpha-1,6-glucosidase activity|cation binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_epithelial(167;2.2e-06)|all_lung(203;0.000295)|Lung NSC(277;0.00131)		Epithelial(280;0.15)|COAD - Colon adenocarcinoma(174;0.151)|Lung(183;0.209)|all cancers(265;0.237)		AGAAAATAGGCGAGTAACCAA	0.333													5	38					0	0	0.001168	0	0	
CCDC76	54482	broad.mit.edu	37	1	100606013	100606013	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:100606013C>T	uc001dsv.2	+	6	463	c.444C>T	c.(442-444)CAC>CAT	p.H148H	CCDC76_uc010ouf.1_RNA|CCDC76_uc009wea.2_Silent_p.H148H	NM_019083	NP_061956	Q9NUP7	TRM13_HUMAN	coiled-coil domain containing 76	148					tRNA processing		metal ion binding|methyltransferase activity			ovary(1)	1		all_epithelial(167;0.000542)|all_lung(203;0.0154)|Lung NSC(277;0.0155)		Epithelial(280;0.0814)|all cancers(265;0.133)|COAD - Colon adenocarcinoma(174;0.146)|Lung(183;0.194)		CAGCATTACACGATGCACTTA	0.393													6	130					0	0	0.004482	0	0	
VCAM1	7412	broad.mit.edu	37	1	101194751	101194751	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:101194751C>A	uc001dti.2	+	5	1137	c.1017C>A	c.(1015-1017)GGC>GGA	p.G339G	VCAM1_uc001dtj.2_Intron|VCAM1_uc010ouj.1_Silent_p.G277G	NM_001078	NP_001069	P19320	VCAM1_HUMAN	vascular cell adhesion molecule 1 isoform a	339	Ig-like C2-type 4.|Extracellular (Potential).				heterophilic cell-cell adhesion|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|leukocyte tethering or rolling|membrane to membrane docking|positive regulation of T cell proliferation|regulation of immune response	alpha9-beta1 integrin-vascular cell adhesion molecule-1 complex|apical part of cell|external side of plasma membrane|extracellular space|filopodium|integral to membrane|microvillus|podosome	cell adhesion molecule binding|integrin binding			central_nervous_system(1)	1		all_epithelial(167;3.83e-06)|all_lung(203;0.000485)|Lung NSC(277;0.0011)		Epithelial(280;0.0227)|all cancers(265;0.0276)|COAD - Colon adenocarcinoma(174;0.149)|Colorectal(144;0.169)|Lung(183;0.196)	Carvedilol(DB01136)	GTGTCATGGGCTGTGAATCCC	0.547													27	64					1.17739e-12	1.27535e-12	0.005443	1	0	
VCAM1	7412	broad.mit.edu	37	1	101197021	101197021	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:101197021A>G	uc001dti.2	+	6	1592	c.1472A>G	c.(1471-1473)GAC>GGC	p.D491G	VCAM1_uc001dtj.2_Missense_Mutation_p.D399G|VCAM1_uc010ouj.1_Missense_Mutation_p.D429G	NM_001078	NP_001069	P19320	VCAM1_HUMAN	vascular cell adhesion molecule 1 isoform a	491	Ig-like C2-type 5.|Extracellular (Potential).				heterophilic cell-cell adhesion|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|leukocyte tethering or rolling|membrane to membrane docking|positive regulation of T cell proliferation|regulation of immune response	alpha9-beta1 integrin-vascular cell adhesion molecule-1 complex|apical part of cell|external side of plasma membrane|extracellular space|filopodium|integral to membrane|microvillus|podosome	cell adhesion molecule binding|integrin binding			central_nervous_system(1)	1		all_epithelial(167;3.83e-06)|all_lung(203;0.000485)|Lung NSC(277;0.0011)		Epithelial(280;0.0227)|all cancers(265;0.0276)|COAD - Colon adenocarcinoma(174;0.149)|Colorectal(144;0.169)|Lung(183;0.196)	Carvedilol(DB01136)	CATATTGATGACATGGAATTC	0.363													5	118					0	0	0.001168	0	0	
NTNG1	22854	broad.mit.edu	37	1	107867347	107867347	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:107867347G>A	uc001dvh.3	+	3	1408	c.690G>A	c.(688-690)GCG>GCA	p.A230A	NTNG1_uc001dvf.3_Silent_p.A230A|NTNG1_uc010out.1_Silent_p.A230A|NTNG1_uc001dvc.3_Silent_p.A230A|NTNG1_uc001dvd.1_Silent_p.A230A	NM_001113226	NP_001106697	Q9Y2I2	NTNG1_HUMAN	netrin G1 isoform 1	230	Laminin N-terminal.				axonogenesis	anchored to plasma membrane	protein binding			large_intestine(2)|ovary(2)|skin(2)	6		all_epithelial(167;1.39e-05)|all_lung(203;0.000115)|Lung NSC(277;0.000238)|Breast(1374;0.243)		Lung(183;0.0946)|BRCA - Breast invasive adenocarcinoma(282;0.237)|Epithelial(280;0.245)		ACAGGTTCGCGTTTTTTGCTG	0.428													4	44					0	0	0.000602	0	0	
NBPF4	148545	broad.mit.edu	37	1	108766345	108766345	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:108766345C>T	uc009weo.2	-	15	2117	c.1899G>A	c.(1897-1899)ACG>ACA	p.T633T	NBPF4_uc001dvo.2_RNA	NM_001143989	NP_001137461	Q96M43	NBPF4_HUMAN	neuroblastoma breakpoint family, member 4	Error:Variant_position_missing_in_Q96M43_after_alignment						cytoplasm					0						CCATCCTTTGCGTCCTTCCAG	0.408													5	16					0	0	0.001168	0	0	
FAM102B	284611	broad.mit.edu	37	1	109154858	109154858	+	Missense_Mutation	SNP	G	A	A	rs141529277	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:109154858G>A	uc010ouy.1	+	4	427	c.347G>A	c.(346-348)CGC>CAC	p.R116H		NM_001010883	NP_001010883	Q5T8I3	F102B_HUMAN	hypothetical protein LOC284611	116										large_intestine(1)	1		all_epithelial(167;5.52e-05)|all_lung(203;0.00026)|Lung NSC(277;0.000508)		Colorectal(144;0.0217)|Lung(183;0.109)|COAD - Colon adenocarcinoma(174;0.141)|Epithelial(280;0.182)		ACCACTCGCCGCTGTTTACTG	0.363													35	84					0	0	0.006999	0	0	
GPSM2	29899	broad.mit.edu	37	1	109461284	109461284	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:109461284C>T	uc010ovc.1	+	12	1809	c.1313C>T	c.(1312-1314)GCC>GTC	p.A438V	AKNAD1_uc010ovb.1_Intron|GPSM2_uc010ovd.1_Missense_Mutation_p.A438V|GPSM2_uc010ove.1_Missense_Mutation_p.A438V	NM_013296	NP_037428	P81274	GPSM2_HUMAN	LGN protein	438					G-protein coupled receptor protein signaling pathway	cell cortex|nucleus	GTPase activator activity|identical protein binding			central_nervous_system(1)	1		all_epithelial(167;7.64e-05)|all_lung(203;0.000321)|Lung NSC(277;0.000626)		Colorectal(144;0.0353)|Lung(183;0.0984)|COAD - Colon adenocarcinoma(174;0.129)|Epithelial(280;0.175)|all cancers(265;0.209)		CCTCTTATTGCCAAACCTTCT	0.388													7	86					0	0	0.003080	0	0	
CELSR2	1952	broad.mit.edu	37	1	109811556	109811556	+	Missense_Mutation	SNP	G	A	A	rs141644848		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:109811556G>A	uc001dxa.3	+	19	6618	c.6557G>A	c.(6556-6558)CGC>CAC	p.R2186H		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	2186	Extracellular (Potential).				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		AAGCTGCCCCGCTACGAGGCC	0.592													8	25					0	0	0.006214	0	0	
MYBPHL	343263	broad.mit.edu	37	1	109840068	109840068	+	Missense_Mutation	SNP	C	T	T	rs34962971		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:109840068C>T	uc001dxk.1	-	3	456	c.406G>A	c.(406-408)GCC>ACC	p.A136T	MYBPHL_uc010ovh.1_Intron|MYBPHL_uc001dxl.2_Intron	NM_001010985	NP_001010985	A2RUH7	MBPHL_HUMAN	myosin binding protein H-like	136	Ig-like C2-type 1.									ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_lung(203;0.00519)|all_epithelial(167;0.00575)|Lung NSC(277;0.00822)		Colorectal(144;0.0306)|Lung(183;0.0681)|COAD - Colon adenocarcinoma(174;0.117)|Epithelial(280;0.197)|all cancers(265;0.225)		TCAATGGTGGCGGTGGCCTCC	0.612													8	20					0	0	0.008291	0	0	
AMPD2	271	broad.mit.edu	37	1	110172028	110172028	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:110172028C>T	uc009wfh.1	+	15	2482	c.1940C>T	c.(1939-1941)GCG>GTG	p.A647V	AMPD2_uc009wfg.1_RNA|AMPD2_uc001dyb.1_Missense_Mutation_p.A566V|AMPD2_uc001dyc.1_Missense_Mutation_p.A647V|AMPD2_uc010ovr.1_Missense_Mutation_p.A572V|AMPD2_uc001dyd.1_Missense_Mutation_p.A528V|AMPD2_uc001dye.1_5'UTR	NM_004037	NP_004028	Q01433	AMPD2_HUMAN	adenosine monophosphate deaminase 2 (isoform L)	647					purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			ovary(2)|breast(1)	3		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		Lung(183;0.0425)|all cancers(265;0.0884)|Colorectal(144;0.109)|Epithelial(280;0.111)|LUSC - Lung squamous cell carcinoma(189;0.228)		CTGCCTGAGGCGTGGGTGGAG	0.562													40	113					0	0	0.003214	0	0	
ALX3	257	broad.mit.edu	37	1	110603359	110603359	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:110603359G>A	uc001dzb.2	-	4	1116	c.1028C>T	c.(1027-1029)ACG>ATG	p.T343M		NM_006492	NP_006483	O95076	ALX3_HUMAN	aristaless-like homeobox 3	343						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(81;2.35e-05)|all_epithelial(167;7.69e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.015)|all cancers(265;0.0706)|Epithelial(280;0.0758)|Colorectal(144;0.113)|LUSC - Lung squamous cell carcinoma(189;0.135)		AACCGATCACGTGGTCCAGTT	0.577													13	42					0	0	0.004990	0	0	
SLC6A17	388662	broad.mit.edu	37	1	110737374	110737374	+	Silent	SNP	G	A	A	rs143840691		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:110737374G>A	uc009wfq.2	+	9	1934	c.1473G>A	c.(1471-1473)GTG>GTA	p.V491V	SLC6A17_uc001dze.1_Silent_p.V89V	NM_001010898	NP_001010898	Q9H1V8	S6A17_HUMAN	solute carrier family 6, member 17	491	Helical; Name=9; (Potential).				alanine transport|glycine transport|leucine transport|proline transport	cell junction|integral to plasma membrane|synaptic vesicle membrane	neurotransmitter:sodium symporter activity			ovary(1)|pancreas(1)	2		all_cancers(81;9.9e-06)|all_epithelial(167;3.24e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0282)|Epithelial(280;0.0372)|all cancers(265;0.0378)|Colorectal(144;0.0438)|LUSC - Lung squamous cell carcinoma(189;0.151)|COAD - Colon adenocarcinoma(174;0.151)		CCTTCAAGGTGCCCAAGGAGA	0.577													4	48					0	0	0.009096	0	0	
RBM15	64783	broad.mit.edu	37	1	110884009	110884009	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:110884009G>A	uc001dzl.1	+	1	2065	c.1982G>A	c.(1981-1983)CGC>CAC	p.R661H	RBM15_uc001dzm.1_Missense_Mutation_p.R661H|uc001dzj.2_5'Flank	NM_022768	NP_073605	Q96T37	RBM15_HUMAN	RNA binding motif protein 15	661	Arg-rich.				interspecies interaction between organisms	nucleus	nucleotide binding|protein binding|RNA binding			ovary(3)	3		all_cancers(81;2.89e-06)|all_epithelial(167;2.96e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)|Breast(1374;0.0634)		BRCA - Breast invasive adenocarcinoma(282;0.000224)|Epithelial(280;0.000476)|Kidney(133;0.000539)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|all cancers(265;0.00144)|Lung(183;0.0238)|Colorectal(144;0.103)|LUSC - Lung squamous cell carcinoma(189;0.135)		GAGAGTGACCGCCCACGAAAA	0.567			T	MKL1	acute megakaryocytic leukemia								7	27					0	0	0.001984	0	0	
KCNA3	3738	broad.mit.edu	37	1	111216253	111216253	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:111216253C>T	uc001dzv.1	-	1	1403	c.1179G>A	c.(1177-1179)GCG>GCA	p.A393A		NM_002232	NP_002223	P22001	KCNA3_HUMAN	potassium voltage-gated channel, shaker-related	393						voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(4)|pancreas(1)	5		all_cancers(81;3.92e-06)|all_epithelial(167;1.28e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Lung(183;0.0235)|Colorectal(144;0.0306)|all cancers(265;0.0752)|Epithelial(280;0.0821)|COAD - Colon adenocarcinoma(174;0.132)|LUSC - Lung squamous cell carcinoma(189;0.133)		CCCGCATGGACGCCTTCAGCG	0.587													8	80					0	0	0.003080	0	0	
C1orf103	55791	broad.mit.edu	37	1	111495126	111495126	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:111495126T>A	uc001eaa.2	-	2	636	c.380A>T	c.(379-381)AAT>ATT	p.N127I	C1orf103_uc001dzz.2_Intron|C1orf103_uc001eab.2_Intron|C1orf103_uc001eac.1_Intron	NM_018372	NP_060842	Q5T3J3	LRIF1_HUMAN	receptor-interacting factor 1 isoform 1	127					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear matrix	protein binding				0		all_cancers(81;1.02e-05)|all_epithelial(167;1.87e-05)|all_lung(203;0.000234)|Lung NSC(277;0.000451)		Lung(183;0.0155)|Colorectal(144;0.0314)|all cancers(265;0.082)|LUSC - Lung squamous cell carcinoma(189;0.0826)|Epithelial(280;0.0891)|COAD - Colon adenocarcinoma(174;0.134)		TGAAGAAAAATTTCCAGTTCC	0.378													24	77					0	0	0.003330	0	0	
OVGP1	5016	broad.mit.edu	37	1	111969183	111969183	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:111969183G>A	uc001eba.2	-	3	192	c.136C>T	c.(136-138)CTG>TTG	p.L46L	OVGP1_uc001eaz.2_5'UTR|OVGP1_uc010owb.1_5'UTR|OVGP1_uc010owc.1_Silent_p.L36L	NM_002557	NP_002548	Q12889	OVGP1_HUMAN	oviductal glycoprotein 1 precursor	46					chitin catabolic process|female pregnancy|single fertilization	transport vesicle	cation binding|chitinase activity			ovary(4)|large_intestine(1)	5		all_cancers(81;8.18e-06)|all_epithelial(167;5.64e-06)|all_lung(203;0.000152)|Lung NSC(277;0.000302)		Lung(183;0.0253)|Colorectal(144;0.033)|all cancers(265;0.0552)|Epithelial(280;0.0802)|COAD - Colon adenocarcinoma(174;0.123)|LUSC - Lung squamous cell carcinoma(189;0.14)		AAGGGGTCCAGGTCATGGGGC	0.512													10	29					0	0	0.000978	0	0	
KCND3	3752	broad.mit.edu	37	1	112524688	112524688	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:112524688G>A	uc001ebu.1	-	2	1141	c.661C>T	c.(661-663)CGC>TGC	p.R221C	KCND3_uc001ebv.1_Missense_Mutation_p.R221C	NM_004980	NP_004971	Q9UK17	KCND3_HUMAN	potassium voltage-gated channel, Shal-related	221						sarcolemma|voltage-gated potassium channel complex	A-type (transient outward) potassium channel activity|metal ion binding			ovary(2)|large_intestine(1)	3		all_cancers(81;8.52e-06)|all_epithelial(167;5.65e-06)|all_lung(203;2.72e-05)|Lung NSC(69;4.56e-05)		all cancers(265;0.056)|Lung(183;0.0576)|Colorectal(144;0.1)|Epithelial(280;0.104)|COAD - Colon adenocarcinoma(174;0.222)|LUSC - Lung squamous cell carcinoma(189;0.231)		ACCGAGTAGCGCTCCCCGCAC	0.657													6	9					0	0	0.006214	0	0	
CAPZA1	829	broad.mit.edu	37	1	113189836	113189836	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:113189836G>A	uc001ecj.1	+	2	436	c.44G>A	c.(43-45)CGC>CAC	p.R15H		NM_006135	NP_006126	P52907	CAZA1_HUMAN	F-actin capping protein alpha-1 subunit	15					actin cytoskeleton organization|actin filament capping|blood coagulation|cellular component movement|innate immune response|protein complex assembly	cytosol|extracellular region|F-actin capping protein complex|WASH complex	actin binding				0	Lung SC(450;0.246)	all_cancers(81;1.44e-07)|all_epithelial(167;7.64e-07)|all_lung(203;2.16e-05)|Lung NSC(69;3.86e-05)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		CTTTAGGTACGCATAGCTGCT	0.303													14	86					0	0	0.007413	0	0	
HIPK1	204851	broad.mit.edu	37	1	114499899	114499899	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:114499899G>A	uc001eem.2	+	7	1907	c.1746G>A	c.(1744-1746)GTG>GTA	p.V582V	HIPK1_uc001eel.2_Silent_p.V582V|HIPK1_uc001een.2_Silent_p.V582V|HIPK1_uc001eeo.2_Silent_p.V208V|HIPK1_uc001eep.2_Silent_p.V188V	NM_198268	NP_938009	Q86Z02	HIPK1_HUMAN	homeodomain-interacting protein kinase 1 isoform	582					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(4)	4	Lung SC(450;0.184)	all_cancers(81;4.5e-08)|all_epithelial(167;1.09e-07)|all_lung(203;1.53e-05)|Lung NSC(69;2.76e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TCAATACAGTGCACAATCAGG	0.373													18	40					0	0	0.008871	0	0	
TRIM33	51592	broad.mit.edu	37	1	114967378	114967378	+	Splice_Site	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:114967378C>T	uc001eew.2	-	10	1780	c.1696_splice	c.e10-1	p.P566_splice	TRIM33_uc010owr.1_Splice_Site_p.P156_splice|TRIM33_uc010ows.1_Splice_Site_p.P174_splice|TRIM33_uc001eex.2_Splice_Site_p.P566_splice	NM_015906	NP_056990	Q9UPN9	TRI33_HUMAN	tripartite motif-containing 33 protein isoform						negative regulation of BMP signaling pathway|negative regulation of transcription, DNA-dependent|protein ubiquitination|regulation of transforming growth factor beta receptor signaling pathway|transcription, DNA-dependent	nucleus	co-SMAD binding|DNA binding|ligase activity|R-SMAD binding|zinc ion binding			lung(4)|central_nervous_system(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	11	all_epithelial(7;0.000132)|all_lung(7;0.00106)|Lung SC(450;0.184)	all_cancers(81;3.03e-08)|all_epithelial(167;3.24e-08)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		ATCGAGGAGGCTACAAAAAGT	0.303			T	RET	papillary thyroid								3	31					0	0	0.004672	0	0	
NGF	4803	broad.mit.edu	37	1	115828756	115828756	+	Missense_Mutation	SNP	G	A	A	rs11466112		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:115828756G>A	uc001efu.1	-	3	830	c.661C>T	c.(661-663)CGG>TGG	p.R221W		NM_002506	NP_002497	P01138	NGF_HUMAN	nerve growth factor, beta polypeptide precursor	221					activation of MAPKK activity|activation of phospholipase C activity|anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|negative regulation of cell cycle|nerve growth factor processing|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|Ras protein signal transduction	endosome|Golgi lumen	growth factor activity|nerve growth factor receptor binding			upper_aerodigestive_tract(2)	2	Lung SC(450;0.211)	all_cancers(81;1.07e-06)|all_epithelial(167;4.43e-06)|all_lung(203;2.86e-05)|Lung NSC(69;4.99e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)|all cancers(265;0.159)|Epithelial(280;0.179)	Clenbuterol(DB01407)	CGGATAAACCGCCAGGCAGCC	0.587													12	35					0	0	0.002450	0	0	
IGSF3	3321	broad.mit.edu	37	1	117150721	117150721	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:117150721G>A	uc001egr.1	-	5	1770	c.1065C>T	c.(1063-1065)AGC>AGT	p.S355S	IGSF3_uc001egq.1_Silent_p.S355S|IGSF3_uc001egs.1_Silent_p.S28S	NM_001007237	NP_001007238	O75054	IGSF3_HUMAN	immunoglobulin superfamily, member 3 isoform 2	355	Ig-like C2-type 3.|Extracellular (Potential).					integral to membrane				ovary(2)	2	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)		AGACACTGTCGCTCTCTTTGG	0.567													10	101					0	0	0.008291	0	0	
IGSF3	3321	broad.mit.edu	37	1	117156493	117156493	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:117156493G>A	uc001egr.1	-	4	1431	c.726C>T	c.(724-726)GGC>GGT	p.G242G	IGSF3_uc001egq.1_Silent_p.G242G	NM_001007237	NP_001007238	O75054	IGSF3_HUMAN	immunoglobulin superfamily, member 3 isoform 2	242	Ig-like C2-type 2.|Extracellular (Potential).					integral to membrane				ovary(2)	2	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)		AGTAGAATTCGCCCTGGTCAG	0.627													8	24					0	0	0.008291	0	0	
IGSF3	3321	broad.mit.edu	37	1	117156666	117156666	+	Silent	SNP	G	T	T	rs144111921		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:117156666G>T	uc001egr.1	-	4	1258	c.553C>A	c.(553-555)CGG>AGG	p.R185R	IGSF3_uc001egq.1_Silent_p.R185R	NM_001007237	NP_001007238	O75054	IGSF3_HUMAN	immunoglobulin superfamily, member 3 isoform 2	185	Ig-like C2-type 2.|Extracellular (Potential).					integral to membrane				ovary(2)	2	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)		ACTTTCTGCCGGAGCCAGGCC	0.612													9	24					5.16669e-11	5.5711e-11	0.000978	1	0	
SPAG17	200162	broad.mit.edu	37	1	118634571	118634571	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:118634571G>A	uc001ehk.2	-	9	1296	c.1228C>T	c.(1228-1230)CCG>TCG	p.P410S		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	410						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		GGAGCTTGCGGTTCTTCATAC	0.448													46	171					0	0	0.003610	0	0	
HSD3B2	3284	broad.mit.edu	37	1	119965056	119965056	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:119965056A>G	uc001ehs.2	+	3	1705	c.932A>G	c.(931-933)CAA>CGA	p.Q311R	HSD3B2_uc001eht.2_Missense_Mutation_p.Q311R|HSD3B2_uc001ehu.2_Intron	NM_000198	NP_000189	P26439	3BHS2_HUMAN	3 beta-hydroxysteroid dehydrogenase 2	311					androgen biosynthetic process|glucocorticoid biosynthetic process|mineralocorticoid biosynthetic process	integral to membrane|microsome|mitochondrial inner membrane|mitochondrial intermembrane space|smooth endoplasmic reticulum membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|steroid delta-isomerase activity			ovary(2)	2	all_neural(166;0.187)	all_lung(203;1.06e-06)|Lung NSC(69;7.5e-06)|all_epithelial(167;0.000284)		Lung(183;0.015)|LUSC - Lung squamous cell carcinoma(189;0.0836)	NADH(DB00157)|Trilostane(DB01108)	TACTCCTATCAACCCCCCTTC	0.488													5	47					0	0	0.001984	0	0	
HSD3B2	3284	broad.mit.edu	37	1	119985638	119985638	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:119985638C>G	uc001ehu.2	+	4	587	c.445C>G	c.(445-447)CAG>GAG	p.Q149E				P26439	3BHS2_HUMAN	RecName: Full=3 beta-hydroxysteroid dehydrogenase/Delta 5-->4-isomerase type 2; AltName: Full=3-beta-HSD II; Includes:   RecName: Full=3-beta-hydroxy-Delta(5)-steroid dehydrogenase;            EC=1.1.1.145;   AltName: Full=3-beta-hydroxy-5-ene steroid dehydrogenase;   AltName: Full=Progesterone reductase; Includes:   RecName: Full=Steroid Delta-isomerase;            EC=5.3.3.1;   AltName: Full=Delta-5-3-ketosteroid isomerase;	Error:Variant_position_missing_in_P26439_after_alignment					androgen biosynthetic process|glucocorticoid biosynthetic process|mineralocorticoid biosynthetic process	integral to membrane|microsome|mitochondrial inner membrane|mitochondrial intermembrane space|smooth endoplasmic reticulum membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|steroid delta-isomerase activity			ovary(2)	2	all_neural(166;0.187)	all_lung(203;1.06e-06)|Lung NSC(69;7.5e-06)|all_epithelial(167;0.000284)		Lung(183;0.015)|LUSC - Lung squamous cell carcinoma(189;0.0836)	NADH(DB00157)|Trilostane(DB01108)	CACTCACAGACAGTCTATCAT	0.498													4	40					0	0	0.001984	0	0	
NOTCH2	4853	broad.mit.edu	37	1	120462077	120462077	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:120462077G>A	uc001eik.2	-	31	5895	c.5639C>T	c.(5638-5640)GCC>GTC	p.A1880V		NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	1880	Cytoplasmic (Potential).|ANK 2.				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		AAGGTGCAGGGCCATCTCACC	0.592			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				5	35					0	0	0.000602	0	0	
NOTCH2	4853	broad.mit.edu	37	1	120483245	120483245	+	Missense_Mutation	SNP	G	A	A	rs61755044	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:120483245G>A	uc001eik.2	-	19	3372	c.3116C>T	c.(3115-3117)ACG>ATG	p.T1039M	NOTCH2_uc001eil.2_Missense_Mutation_p.T1039M	NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	1039	Extracellular (Potential).|EGF-like 27; calcium-binding (Potential).				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		ATCAACACACGTTCCCTCATT	0.522			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				26	87					0	0	0.004656	0	0	
NBPF9	400818	broad.mit.edu	37	1	144814869	144814869	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:144814869G>T	uc009wig.1	+	11	1357	c.1281G>T	c.(1279-1281)CAG>CAT	p.Q427H	NBPF9_uc010oxn.1_Intron|NBPF9_uc010oxo.1_Missense_Mutation_p.Q427H|NBPF9_uc010oxr.1_Intron|NBPF9_uc010oxt.1_Intron|NBPF9_uc001ekg.1_Intron|NBPF9_uc001ekk.1_Intron|NBPF10_uc009wir.2_Intron|NBPF9_uc010oyd.1_Intron|NBPF9_uc010oye.1_Missense_Mutation_p.Q358H|NBPF9_uc001eli.3_RNA|NBPF9_uc010oyf.1_Missense_Mutation_p.Q358H|NBPF9_uc010oyg.1_Missense_Mutation_p.Q392H|NBPF9_uc009wii.1_Missense_Mutation_p.Q156H|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|NBPF9_uc001elp.2_Missense_Mutation_p.Q87H	NM_001037675	NP_001032764	Q3BBV1	NBPFK_HUMAN	hypothetical protein LOC400818	427						cytoplasm					0						GACTGGCACAGCACCTTGTCC	0.572													5	84					0.00307968	0.00319789	0.003080	1	0	
PDE4DIP	9659	broad.mit.edu	37	1	144916600	144916600	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:144916600C>T	uc001elw.3	-	13	2046	c.1755G>A	c.(1753-1755)ACG>ACA	p.T585T	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Silent_p.T651T|PDE4DIP_uc001emc.1_Silent_p.T585T|PDE4DIP_uc001emd.1_Silent_p.T585T|PDE4DIP_uc001emb.1_Silent_p.T748T|PDE4DIP_uc001eme.1_Silent_p.T114T|PDE4DIP_uc001emf.1_Silent_p.T372T	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	585	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		CATGAAGAGACGTCTGTAACT	0.418			T	PDGFRB	MPD								21	748					0	0	0.003330	0	0	
PDE4DIP	9659	broad.mit.edu	37	1	144917533	144917533	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:144917533C>T	uc001elw.3	-	12	1862	c.1571G>A	c.(1570-1572)CGC>CAC	p.R524H	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.R590H|PDE4DIP_uc001emc.1_Missense_Mutation_p.R524H|PDE4DIP_uc001emd.1_Missense_Mutation_p.R524H|PDE4DIP_uc001emb.1_Missense_Mutation_p.R687H|PDE4DIP_uc001eme.1_Missense_Mutation_p.R53H|PDE4DIP_uc001emf.1_Missense_Mutation_p.R311H	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	524	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		GAGGACATCGCGCAGTCTCTC	0.458			T	PDGFRB	MPD								54	389					0	0	0.003610	0	0	
TXNIP	10628	broad.mit.edu	37	1	145440095	145440095	+	Missense_Mutation	SNP	C	T	T	rs143973146	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:145440095C>T	uc001enn.3	+	4	870	c.529C>T	c.(529-531)CGG>TGG	p.R177W	NBPF10_uc001emp.3_Intron|TXNIP_uc001enm.1_Intron|TXNIP_uc010oys.1_Missense_Mutation_p.R122W	NM_006472	NP_006463	Q9H3M7	TXNIP_HUMAN	thioredoxin interacting protein	177					cell cycle|keratinocyte differentiation|transcription, DNA-dependent		ubiquitin protein ligase binding			ovary(2)	2	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					TCCTGATGGGCGGGTGTCTGT	0.428													10	293					0	0	0.000978	0	0	
PDZK1	5174	broad.mit.edu	37	1	145748554	145748554	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:145748554G>T	uc001eon.1	+	4	524	c.427G>T	c.(427-429)GGC>TGC	p.G143C	NBPF10_uc001emp.3_Intron|PDZK1_uc001eoo.1_Missense_Mutation_p.G143C|PDZK1_uc010oza.1_Missense_Mutation_p.G143C	NM_002614	NP_002605	Q5T2W1	NHRF3_HUMAN	PDZ domain containing 1	143	PDZ 2.				carnitine transport|cell proliferation|drug transport|positive regulation of ion transmembrane transport	brush border membrane|cytoplasm	PDZ domain binding|transporter activity				0	all_hematologic(18;0.00473)|Acute lymphoblastic leukemia(18;0.0786)		KIRC - Kidney renal clear cell carcinoma(6;0.0764)|Kidney(552;0.118)|Colorectal(543;0.229)			GAAGGAAGGAGGCAGCTATGG	0.522													6	75					8.12818e-05	8.5301e-05	0.001984	1	0	
CHD1L	9557	broad.mit.edu	37	1	146756152	146756152	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:146756152T>C	uc001epm.3	+	16	1897	c.1834T>C	c.(1834-1836)TCA>CCA	p.S612P	uc001epp.2_Intron|CHD1L_uc001epn.3_Missense_Mutation_p.S499P|CHD1L_uc010ozo.1_RNA|CHD1L_uc009wjg.2_RNA|CHD1L_uc009wjh.2_Missense_Mutation_p.S518P|CHD1L_uc010ozp.1_Missense_Mutation_p.S331P|CHD1L_uc001epo.3_Missense_Mutation_p.S408P|CHD1L_uc010ozq.1_Missense_Mutation_p.S185P|CHD1L_uc009wji.2_Missense_Mutation_p.S331P	NM_004284	NP_004275	Q86WJ1	CHD1L_HUMAN	chromodomain helicase DNA binding protein	612					chromatin remodeling|DNA repair	cytoplasm|nucleus|plasma membrane	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding			ovary(3)|lung(2)|upper_aerodigestive_tract(1)	6	all_hematologic(923;0.0487)					AGAGGGCCGATCACTCCGAAA	0.353													39	113					0	0	0.008740	0	0	
LOC388692	388692	broad.mit.edu	37	1	149280571	149280571	+	RNA	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:149280571G>A	uc010pbf.1	+	1		c.1096G>A				NR_027002				Homo sapiens cDNA FLJ13580 fis, clone PLACE1008851.												0						AAATCCTTTCGCATCTGTACC	0.413													3	9					0	0	0.000602	0	0	
LOC388692	388692	broad.mit.edu	37	1	149284701	149284701	+	RNA	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:149284701T>C	uc010pbf.1	+	1		c.5226T>C			LOC388692_uc001esg.3_5'Flank	NR_027002				Homo sapiens cDNA FLJ13580 fis, clone PLACE1008851.												0						AGAGGCTGAGTCGACTAATCG	0.502													2	5					0	0	0.004672	0	0	
SV2A	9900	broad.mit.edu	37	1	149879659	149879659	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:149879659C>T	uc001etg.2	-	9	1970	c.1479G>A	c.(1477-1479)GAG>GAA	p.E493E	SV2A_uc009wlk.2_5'Flank|SV2A_uc001eth.2_Silent_p.E493E	NM_014849	NP_055664	Q7L0J3	SV2A_HUMAN	synaptic vesicle glycoprotein 2	493	Extracellular (Potential).			E -> G (in Ref. 4; CAD97824).	neurotransmitter transport	cell junction|endoplasmic reticulum|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			ovary(6)|pancreas(1)	7	Breast(34;0.00769)|all_hematologic(923;0.127)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)		Levetiracetam(DB01202)	AAGTTACATGCTCTACGCGCT	0.522													5	113					0	0	0.001168	0	0	
SF3B4	10262	broad.mit.edu	37	1	149898418	149898418	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:149898418G>A	uc001etj.1	-	3	607	c.556C>T	c.(556-558)CGC>TGC	p.R186C	SF3B4_uc001eti.1_5'Flank|SF3B4_uc001etk.1_Missense_Mutation_p.R186C|SF3B4_uc009wll.1_Missense_Mutation_p.R186C	NM_005850	NP_005841	Q15427	SF3B4_HUMAN	splicing factor 3b, subunit 4	186						nucleoplasm|U12-type spliceosomal complex	nucleotide binding|protein binding|RNA binding			ovary(1)	1	Breast(34;0.0009)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)			GAGCCATGGCGCTCACCCTTG	0.557													23	50					0	0	0.007291	0	0	
PRPF3	9129	broad.mit.edu	37	1	150305209	150305209	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:150305209C>A	uc001eum.3	+	5	640	c.478C>A	c.(478-480)CTG>ATG	p.L160M	PRPF3_uc009wlp.2_RNA|PRPF3_uc010pca.1_Missense_Mutation_p.L119M|PRPF3_uc010pcb.1_Missense_Mutation_p.L111M|PRPF3_uc009wlq.1_5'Flank	NM_004698	NP_004689	O43395	PRPF3_HUMAN	PRP3 pre-mRNA processing factor 3 homolog	160					nuclear mRNA splicing, via spliceosome	Cajal body|cytoplasm|nuclear speck|spliceosomal complex	protein binding			ovary(1)	1	Lung NSC(24;5.57e-29)|Breast(34;0.000844)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)	Colorectal(1306;0.0149)		GAAAAAACAGCTGAGCTTCAT	0.408													27	52					7.01153e-11	7.55411e-11	0.007291	1	0	
HORMAD1	84072	broad.mit.edu	37	1	150680815	150680815	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:150680815C>T	uc001evk.1	-	9	570	c.464G>A	c.(463-465)CGC>CAC	p.R155H	HORMAD1_uc001evl.1_Missense_Mutation_p.R148H|HORMAD1_uc001evm.1_Missense_Mutation_p.R75H	NM_032132	NP_115508	Q86X24	HORM1_HUMAN	HORMA domain containing 1	155	HORMA.				blastocyst development|cell differentiation|meiotic DNA double-strand break formation|meiotic recombination checkpoint|meiotic sister chromatid cohesion|mitosis|oogenesis|regulation of homologous chromosome segregation|spermatogenesis|synaptonemal complex assembly	chromosome|nucleus				ovary(2)|central_nervous_system(1)	3	all_cancers(9;3.23e-52)|all_epithelial(9;4.68e-43)|all_lung(15;5.74e-35)|Lung NSC(24;2.09e-31)|Breast(34;0.0009)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0241)|Epithelial(6;2.32e-23)|all cancers(9;5.21e-23)|OV - Ovarian serous cystadenocarcinoma(6;6.72e-15)|BRCA - Breast invasive adenocarcinoma(12;0.000479)|LUSC - Lung squamous cell carcinoma(543;0.171)			ATAAATCTTGCGAATGAGGAG	0.328													13	59					0	0	0.002450	0	0	
HORMAD1	84072	broad.mit.edu	37	1	150680846	150680846	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:150680846C>T	uc001evk.1	-	9	539	c.433G>A	c.(433-435)GAC>AAC	p.D145N	HORMAD1_uc001evl.1_Missense_Mutation_p.D138N|HORMAD1_uc001evm.1_Missense_Mutation_p.D65N	NM_032132	NP_115508	Q86X24	HORM1_HUMAN	HORMA domain containing 1	145	HORMA.				blastocyst development|cell differentiation|meiotic DNA double-strand break formation|meiotic recombination checkpoint|meiotic sister chromatid cohesion|mitosis|oogenesis|regulation of homologous chromosome segregation|spermatogenesis|synaptonemal complex assembly	chromosome|nucleus				ovary(2)|central_nervous_system(1)	3	all_cancers(9;3.23e-52)|all_epithelial(9;4.68e-43)|all_lung(15;5.74e-35)|Lung NSC(24;2.09e-31)|Breast(34;0.0009)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0241)|Epithelial(6;2.32e-23)|all cancers(9;5.21e-23)|OV - Ovarian serous cystadenocarcinoma(6;6.72e-15)|BRCA - Breast invasive adenocarcinoma(12;0.000479)|LUSC - Lung squamous cell carcinoma(543;0.171)			TTCTTGGTGTCAGTAGACAAC	0.328													17	57					0	0	0.006122	0	0	
GABPB2	126626	broad.mit.edu	37	1	151076045	151076045	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:151076045C>T	uc001ewr.2	+	6	961	c.630C>T	c.(628-630)CCC>CCT	p.P210P	GABPB2_uc010pcp.1_Silent_p.P226P|GABPB2_uc001ews.2_Silent_p.P170P|GABPB2_uc001ewt.2_Intron	NM_144618	NP_653219	Q8TAK5	GABP2_HUMAN	GA repeat binding protein, beta 2	210					positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	protein heterodimerization activity|transcription regulatory region DNA binding				0				all cancers(107;7.17e-05)|GBM - Glioblastoma multiforme(94;0.000662)		TAGGTGACCCCCATGCCTCAA	0.433													10	52					0	0	0.000978	0	0	
PI4KB	5298	broad.mit.edu	37	1	151276023	151276023	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:151276023T>C	uc001ext.2	-	6	1929	c.1514A>G	c.(1513-1515)GAC>GGC	p.D505G	PI4KB_uc001exr.2_Missense_Mutation_p.D517G|PI4KB_uc001exs.2_Missense_Mutation_p.D490G|PI4KB_uc001exu.2_Missense_Mutation_p.D490G|PI4KB_uc010pcw.1_Missense_Mutation_p.D173G	NM_002651	NP_002642	Q9UBF8	PI4KB_HUMAN	catalytic phosphatidylinositol 4-kinase beta	505					phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|receptor-mediated endocytosis	endosome|Golgi apparatus|mitochondrial outer membrane|perinuclear region of cytoplasm|rough endoplasmic reticulum membrane	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			ovary(2)|skin(2)	4	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			ATACCGGATGTCCCCTGCTGC	0.507													46	174					0	0	0.003610	0	0	
POGZ	23126	broad.mit.edu	37	1	151396574	151396574	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:151396574G>A	uc001eyd.1	-	9	1680	c.1374C>T	c.(1372-1374)GGC>GGT	p.G458G	POGZ_uc001eye.1_Silent_p.G405G|POGZ_uc010pdb.1_Silent_p.G449G|POGZ_uc001eyf.1_Silent_p.G405G|POGZ_uc010pdc.1_Silent_p.G396G|POGZ_uc009wmv.1_Silent_p.G363G|POGZ_uc010pdd.1_Intron	NM_015100	NP_055915	Q7Z3K3	POGZ_HUMAN	pogo transposable element with ZNF domain	458					cell division|kinetochore assembly|mitotic sister chromatid cohesion|regulation of transcription, DNA-dependent	cytoplasm|nuclear chromatin	DNA binding|protein binding|zinc ion binding			ovary(3)	3	Lung SC(34;0.00471)|Ovarian(49;0.00672)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			GGACGGCATCGCCCACGTTCT	0.507													5	107					0	0	0.000602	0	0	
CELF3	11189	broad.mit.edu	37	1	151680282	151680282	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:151680282C>T	uc001eys.1	-	6	1410	c.616G>A	c.(616-618)GCC>ACC	p.A206T	CELF3_uc010pdh.1_Missense_Mutation_p.A14T|CELF3_uc001eyr.2_Missense_Mutation_p.A205T|CELF3_uc009wmy.2_Missense_Mutation_p.A206T|CELF3_uc009wmx.1_Missense_Mutation_p.A206T|CELF3_uc001eyt.2_Missense_Mutation_p.A129T|C1orf230_uc001eyu.2_5'Flank	NM_007185	NP_009116	Q5SZQ8	CELF3_HUMAN	trinucleotide repeat containing 4	206					nuclear mRNA splicing, via spliceosome|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	mRNA binding|nucleotide binding			ovary(1)|central_nervous_system(1)	2						TGGGTGTAGGCGCTGTAGGCT	0.677													4	11					0	0	0.000602	0	0	
TDRKH	11022	broad.mit.edu	37	1	151747603	151747603	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:151747603C>T	uc009wnb.1	-	11	1656	c.1474G>A	c.(1474-1476)GCA>ACA	p.A492T	TDRKH_uc001eyy.2_Missense_Mutation_p.A268T|TDRKH_uc001ezb.3_Missense_Mutation_p.A488T|TDRKH_uc001ezc.3_Missense_Mutation_p.A447T|TDRKH_uc001eza.3_Missense_Mutation_p.A492T|TDRKH_uc001ezd.3_Missense_Mutation_p.A492T|TDRKH_uc010pdn.1_Missense_Mutation_p.A268T	NM_006862	NP_006853	Q9Y2W6	TDRKH_HUMAN	tudor and KH domain containing isoform a	492							RNA binding			ovary(1)|pancreas(1)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.14)		LUSC - Lung squamous cell carcinoma(543;0.181)			AGCTCAATTGCGTATCCTTTG	0.408													13	64					0	0	0.004007	0	0	
TCHH	7062	broad.mit.edu	37	1	152082230	152082230	+	Silent	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:152082230T>G	uc001ezp.2	-	2	3463	c.3463A>C	c.(3463-3465)AGA>CGA	p.R1155R	TCHH_uc009wne.1_Silent_p.R1155R	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	1155	4-9.|10 X 30 AA tandem repeats.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GGTTCCTCTCTCAGCAGctgc	0.174													15	45					0	0	0.004990	0	0	
TCHH	7062	broad.mit.edu	37	1	152085491	152085491	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:152085491G>A	uc001ezp.2	-	2	202	c.202C>T	c.(202-204)CGT>TGT	p.R68C	TCHH_uc009wne.1_Missense_Mutation_p.R68C	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	68	2; high affinity (Potential).|EF-hand 2.|S-100-like.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			AAATCGACACGCCCATTACTG	0.443													15	32					0	0	0.004990	0	0	
HRNR	388697	broad.mit.edu	37	1	152188001	152188001	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:152188001C>A	uc001ezt.1	-	3	6180	c.6104G>T	c.(6103-6105)AGC>ATC	p.S2035I		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	2035	22.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTGACCTGAGCTAGCTCCATG	0.572													6	403					0.000157383	0.0001649	0.003080	1	0	
FLG	2312	broad.mit.edu	37	1	152278792	152278792	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:152278792C>T	uc001ezu.1	-	3	8606	c.8570G>A	c.(8569-8571)CGT>CAT	p.R2857H		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	2857	Ser-rich.|Filaggrin 17.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TTCATGGTGACGCGACCCTGA	0.572									Ichthyosis				11	569					0	0	0.000978	0	0	
FLG2	388698	broad.mit.edu	37	1	152327382	152327382	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:152327382G>A	uc001ezw.3	-	3	2953	c.2880C>T	c.(2878-2880)GGC>GGT	p.G960G	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	960	Ser-rich.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GTTGGCCAAAGCCAGAGGATT	0.502													15	393					0	0	0.007413	0	0	
KPRP	448834	broad.mit.edu	37	1	152733226	152733226	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:152733226C>A	uc001fal.1	+	2	1220	c.1162C>A	c.(1162-1164)CTT>ATT	p.L388I		NM_001025231	NP_001020402	Q5T749	KPRP_HUMAN	keratinocyte proline-rich protein	388	Pro-rich.					cytoplasm				ovary(4)|pancreas(1)	5	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			ACCACGGCGTCTTGACCAGTG	0.647													4	37					0.00024832	0.000259867	0.009096	1	0	
LCE1F	353137	broad.mit.edu	37	1	152748933	152748933	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:152748933G>A	uc010pdv.1	+	1	86	c.86G>A	c.(85-87)TGC>TAC	p.C29Y		NM_178354	NP_848131	Q5T754	LCE1F_HUMAN	late cornified envelope 1F	29	Pro-rich.				keratinization						0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			acaccgaagtgccccccaaag	0.393													7	57					0	0	0.003080	0	0	
SPRR4	163778	broad.mit.edu	37	1	152944506	152944506	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:152944506C>A	uc001fav.1	+	2	203	c.140C>A	c.(139-141)GCT>GAT	p.A47D		NM_173080	NP_775103	Q96PI1	SPRR4_HUMAN	small proline-rich protein 4	47	Gln-rich.				keratinization|peptide cross-linking	cell cortex					0	Lung NSC(65;1.46e-29)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			GATCCATGTGCTCCCCAGGTC	0.557													12	142					2.32078e-09	2.48856e-09	0.003163	1	0	
NUP210L	91181	broad.mit.edu	37	1	154125256	154125256	+	Missense_Mutation	SNP	G	A	A	rs150389273	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:154125256G>A	uc001fdw.2	-	2	368	c.296C>T	c.(295-297)ACG>ATG	p.T99M	NUP210L_uc010peh.1_Missense_Mutation_p.T99M	NM_207308	NP_997191	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like isoform 1	99						integral to membrane				skin(5)|ovary(4)|large_intestine(1)|central_nervous_system(1)	11	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)			TATCGGTTGCGTAGATTCAGC	0.423													7	67					0	0	0.003080	0	0	
TPM3	7170	broad.mit.edu	37	1	154145414	154145414	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:154145414C>T	uc001fec.1	-	5	651	c.536G>A	c.(535-537)CGC>CAC	p.R179H	TPM3_uc001fdx.1_5'Flank|TPM3_uc010pei.1_Missense_Mutation_p.R52H|TPM3_uc001fdy.1_Missense_Mutation_p.R142H|TPM3_uc001fdz.1_Missense_Mutation_p.R142H|TPM3_uc001fea.1_Missense_Mutation_p.R142H|TPM3_uc001feb.1_Missense_Mutation_p.R142H|TPM3_uc010pej.1_Missense_Mutation_p.R75H|TPM3_uc009wor.2_Intron|TPM3_uc001fed.1_Missense_Mutation_p.R142H	NM_152263	NP_689476	P06753	TPM3_HUMAN	tropomyosin 3 isoform 1	178	By similarity.				cellular component movement|muscle filament sliding|regulation of muscle contraction	cytosol|muscle thin filament tropomyosin|stress fiber	actin binding		TPM3/ALK(33)	haematopoietic_and_lymphoid_tissue(22)|soft_tissue(11)|skin(1)	34	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)					TTCCTCTGTGCGTTCCAAGTC	0.468			T	NTRK1|ALK	papillary thyroid|ALCL								27	126					0	0	0.006320	0	0	
ATP8B2	57198	broad.mit.edu	37	1	154317952	154317952	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:154317952C>A	uc001fex.2	+	23	2724	c.2724C>A	c.(2722-2724)TTC>TTA	p.F908L		NM_020452	NP_065185	P98198	AT8B2_HUMAN	ATPase, class I, type 8B, member 2 isoform a	894	Helical; (Potential).				ATP biosynthetic process	plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(1)|skin(1)	2	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			TTTGCTATTTCTTCTACAAAA	0.498											OREG0013835	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	291					2.17888e-05	2.29724e-05	0.006214	1	0	
TDRD10	126668	broad.mit.edu	37	1	154493838	154493838	+	Silent	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:154493838A>C	uc009wow.2	+	6	1090	c.252A>C	c.(250-252)ACA>ACC	p.T84T	TDRD10_uc001ffd.2_Silent_p.T84T|TDRD10_uc001ffe.2_Silent_p.T5T	NM_001098475	NP_001091945	Q5VZ19	TDR10_HUMAN	tudor domain containing 10 isoform a	84	RRM.						nucleotide binding|RNA binding			ovary(1)	1	all_lung(78;1.72e-29)|Lung NSC(65;2.96e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)			AGAAAGTGACACTTGCAATCC	0.498													45	128					0	0	0.003610	0	0	
UBE2Q1	55585	broad.mit.edu	37	1	154523896	154523896	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:154523896G>A	uc001fff.1	-	11	1238	c.1147C>T	c.(1147-1149)CGA>TGA	p.R383*		NM_017582	NP_060052	Q7Z7E8	UB2Q1_HUMAN	ubiquitin-conjugating enzyme E2Q	383							ATP binding|protein binding|ubiquitin-protein ligase activity				0	all_lung(78;1.72e-29)|Lung NSC(65;2.96e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)			AACTGCACTCGTGCTTTCCCC	0.582													33	79					0	0	0.007835	0	0	
ADAR	103	broad.mit.edu	37	1	154574691	154574691	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:154574691T>A	uc001ffh.2	-	2	627	c.427A>T	c.(427-429)ATC>TTC	p.I143F	ADAR_uc001ffj.2_Missense_Mutation_p.I143F|ADAR_uc001ffi.2_Missense_Mutation_p.I143F|ADAR_uc001ffk.2_5'UTR|ADAR_uc001ffl.1_5'UTR|ADAR_uc001ffm.1_RNA|ADAR_uc001ffn.1_3'UTR	NM_001111	NP_001102	P55265	DSRAD_HUMAN	adenosine deaminase, RNA-specific isoform a	143	DRADA 1.				adenosine to inosine editing|gene silencing by RNA|mRNA modification|mRNA processing|type I interferon-mediated signaling pathway	cytoplasm|nucleolus|nucleoplasm	DNA binding|double-stranded RNA adenosine deaminase activity|metal ion binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_lung(78;2.22e-29)|Lung NSC(65;3.66e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.0997)		LUSC - Lung squamous cell carcinoma(543;0.185)	Colorectal(1306;0.115)		AACTTTAAGATCCTTTGTTCC	0.483													17	66					0	0	0.008871	0	0	
KCNN3	3782	broad.mit.edu	37	1	154698441	154698441	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:154698441G>A	uc001ffp.2	-	5	1966	c.1652C>T	c.(1651-1653)GCG>GTG	p.A551V	KCNN3_uc001ffo.2_Missense_Mutation_p.A246V	NM_002249	NP_002240	Q9UGI6	KCNN3_HUMAN	small conductance calcium-activated potassium	556						integral to membrane	calmodulin binding			lung(1)	1	all_lung(78;2.29e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.108)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00819)			GTGCTTCTCCGCTTTGGTGAG	0.567													7	20					0	0	0.003080	0	0	
PBXIP1	57326	broad.mit.edu	37	1	154919108	154919108	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:154919108C>T	uc001ffr.2	-	10	1101	c.1042G>A	c.(1042-1044)GGC>AGC	p.G348S	PBXIP1_uc001ffs.2_Missense_Mutation_p.G319S|PBXIP1_uc010pep.1_Missense_Mutation_p.G193S	NM_020524	NP_065385	Q96AQ6	PBIP1_HUMAN	pre-B-cell leukemia homeobox interacting protein	348	Potential.				cell differentiation|multicellular organismal development|negative regulation of transcription, DNA-dependent	cytosol|microtubule|nucleus	protein binding|transcription corepressor activity			large_intestine(1)	1	all_epithelial(22;4.9e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			CCATCTGGGCCCCGGACACAG	0.692													7	19					0	0	0.006214	0	0	
SHC1	6464	broad.mit.edu	37	1	154938054	154938054	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:154938054G>A	uc001ffv.2	-	11	1809	c.1588C>T	c.(1588-1590)CCT>TCT	p.P530S	SHC1_uc001ffu.2_Intron|SHC1_uc001ffz.1_Missense_Mutation_p.P301S|SHC1_uc001ffw.2_Missense_Mutation_p.P531S|SHC1_uc001ffx.2_Missense_Mutation_p.P421S|SHC1_uc001ffy.2_Missense_Mutation_p.P420S	NM_183001	NP_892113	P29353	SHC1_HUMAN	SHC-transforming protein 1 isoform 1	530	SH2.				activation of MAPK activity|blood coagulation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|positive regulation of DNA replication|Ras protein signal transduction|regulation of epidermal growth factor receptor activity|regulation of growth	cytosol|mitochondrial matrix|Shc-EGFR complex	epidermal growth factor receptor binding|insulin receptor binding|insulin-like growth factor receptor binding|phospholipid binding|protein binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(1)|skin(1)	2	all_epithelial(22;4.9e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			AAATGCTTAGGCTGCCCACTC	0.582													7	50					0	0	0.003080	0	0	
DCST2	127579	broad.mit.edu	37	1	154999075	154999075	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:154999075G>A	uc001fgm.2	-	9	1539	c.1459C>T	c.(1459-1461)CGT>TGT	p.R487C	DCST2_uc009wpb.2_RNA	NM_144622	NP_653223	Q5T1A1	DCST2_HUMAN	DC-STAMP domain containing 2	487	Extracellular (Potential).					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_epithelial(22;2.77e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			AGGAGACAACGCCGGGACAAA	0.532													9	108					0	0	0.004482	0	0	
DCST1	149095	broad.mit.edu	37	1	155014205	155014205	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:155014205C>T	uc001fgn.1	+	8	860	c.764C>T	c.(763-765)GCC>GTC	p.A255V	DCST1_uc010per.1_Missense_Mutation_p.A280V|DCST1_uc010pes.1_Missense_Mutation_p.A230V	NM_152494	NP_689707	Q5T197	DCST1_HUMAN	DC-STAMP domain containing 1 isoform 1	255	Extracellular (Potential).					integral to membrane	zinc ion binding			ovary(1)|skin(1)	2	all_epithelial(22;1.43e-30)|all_lung(78;6.64e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.000434)			GTGAACCAGGCCATACTCAGC	0.577													26	75					0	0	0.009535	0	0	
ASH1L	55870	broad.mit.edu	37	1	155317653	155317653	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:155317653G>A	uc009wqq.2	-	20	8092	c.7612C>T	c.(7612-7614)CGT>TGT	p.R2538C	RAG1AP1_uc010pey.1_Intron|ASH1L_uc001fkt.2_Missense_Mutation_p.R2533C|MIR555_hsa-mir-555|MI0003561_5'Flank	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	2538					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			TTTCGTAGACGACAAACATCT	0.453													6	106					0	0	0.001984	0	0	
LMNA	4000	broad.mit.edu	37	1	156105054	156105054	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:156105054G>A	uc001fni.2	+	5	1136	c.887G>A	c.(886-888)CGC>CAC	p.R296H	LMNA_uc001fnf.1_Missense_Mutation_p.R296H|LMNA_uc001fng.2_Missense_Mutation_p.R296H|LMNA_uc001fnh.2_Missense_Mutation_p.R296H|LMNA_uc009wro.1_Missense_Mutation_p.R296H|LMNA_uc010pgz.1_Missense_Mutation_p.R184H|LMNA_uc001fnj.2_Missense_Mutation_p.R215H|LMNA_uc001fnk.2_Missense_Mutation_p.R197H|LMNA_uc009wrp.2_Missense_Mutation_p.A24T|LMNA_uc010pha.1_5'Flank	NM_170707	NP_733821	P02545	LMNA_HUMAN	lamin A/C isoform 1 precursor	296	Coil 2.|Rod.				cellular component disassembly involved in apoptosis|cellular response to hypoxia|establishment or maintenance of microtubule cytoskeleton polarity|muscle organ development|positive regulation of cell aging|regulation of apoptosis|regulation of cell migration	cytoplasm|lamin filament|nuclear envelope|nuclear envelope|perinuclear region of cytoplasm	protein binding|structural molecule activity|structural molecule activity			ovary(2)	2	Hepatocellular(266;0.158)					CAGCAGTCGCGCATCCGCATC	0.637									Werner_syndrome|Hutchinson-Gilford_Progeria_Syndrome				5	7					0	0	0.003080	0	0	
TMEM79	84283	broad.mit.edu	37	1	156255748	156255748	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:156255748T>C	uc010phi.1	+	2	927	c.731T>C	c.(730-732)GTC>GCC	p.V244A	TMEM79_uc001fod.2_Missense_Mutation_p.V85A|TMEM79_uc009wrw.2_Missense_Mutation_p.V244A	NM_032323	NP_115699	Q9BSE2	TMM79_HUMAN	transmembrane protein 79	244	Helical; (Potential).					integral to membrane				central_nervous_system(1)	1	Hepatocellular(266;0.158)					CGCTGCGGGGTCTTTGCCACC	0.607													5	106					0	0	0.001984	0	0	
MEF2D	4209	broad.mit.edu	37	1	156452240	156452240	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:156452240C>T	uc001fpc.2	-	3	637	c.247G>A	c.(247-249)GAC>AAC	p.D83N	MEF2D_uc001fpb.2_Missense_Mutation_p.D83N|MEF2D_uc001fpd.2_Missense_Mutation_p.D83N|MEF2D_uc001fpe.1_Missense_Mutation_p.D83N|MEF2D_uc009wsa.2_RNA	NM_005920	NP_005911	Q14814	MEF2D_HUMAN	myocyte enhancer factor 2D	83	Mef2-type (Potential).				apoptosis|muscle organ development|nervous system development|positive regulation of transcription from RNA polymerase II promoter	nucleus	activating transcription factor binding|histone deacetylase binding|RNA polymerase II regulatory region sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity			ovary(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TCGATGATGTCGGCGTTGGTG	0.587													14	47					0	0	0.004990	0	0	
SH2D2A	9047	broad.mit.edu	37	1	156779590	156779590	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:156779590G>C	uc001fqd.2	-	6	717	c.577C>G	c.(577-579)CCT>GCT	p.P193A	SH2D2A_uc001fqc.1_Missense_Mutation_p.P165A|SH2D2A_uc009wsh.2_Missense_Mutation_p.P203A|SH2D2A_uc001fqe.2_Missense_Mutation_p.P175A|SH2D2A_uc010phs.1_Missense_Mutation_p.P193A	NM_003975	NP_003966	Q9NP31	SH22A_HUMAN	SH2 domain protein 2A isoform 2	193	Pro-rich.				angiogenesis|cell differentiation|signal transduction	cytoplasm|soluble fraction	SH3 domain binding|SH3/SH2 adaptor activity				0	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					AGTCCTGCAGGCTCAGGAGTC	0.552													4	110					0	0	0.001168	0	0	
INSRR	3645	broad.mit.edu	37	1	156812271	156812271	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:156812271G>A	uc010pht.1	-	18	3410	c.3156C>T	c.(3154-3156)GGC>GGT	p.G1052G	NTRK1_uc001fqf.1_Intron|NTRK1_uc009wsi.1_Intron	NM_014215	NP_055030	P14616	INSRR_HUMAN	insulin receptor-related receptor precursor	1052	Cytoplasmic (Potential).|Protein kinase.				protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|insulin receptor substrate binding|metal ion binding|phosphatidylinositol 3-kinase binding|transmembrane receptor protein tyrosine kinase activity			lung(11)|ovary(5)|skin(2)|kidney(1)|central_nervous_system(1)	20	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					GAGTTGGCTGGCCCTGAGATA	0.567													7	84					0	0	0.003080	0	0	
CD1D	912	broad.mit.edu	37	1	158151348	158151348	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:158151348G>A	uc001frr.2	+	3	664	c.165G>A	c.(163-165)ACG>ACA	p.T55T	CD1D_uc009wsr.1_Silent_p.T55T|CD1D_uc009wss.2_Silent_p.T55T|CD1D_uc009wst.1_5'UTR	NM_001766	NP_001757	P15813	CD1D_HUMAN	CD1D antigen precursor	55	Extracellular (Potential).				antigen processing and presentation, endogenous lipid antigen via MHC class Ib|detection of bacterium|innate immune response|interspecies interaction between organisms|positive regulation of innate immune response|T cell selection	endosome membrane|integral to plasma membrane|lysosomal membrane	beta-2-microglobulin binding|exogenous lipid antigen binding|histone binding			ovary(1)	1	all_hematologic(112;0.0378)					AGCTGCAGACGCACAGCTGGA	0.632													5	62					0	0	0.001168	0	0	
CD1B	910	broad.mit.edu	37	1	158298045	158298046	+	Missense_Mutation	DNP	GA	AT	AT			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:158298045_158298046GA>AT	uc001frx.2	-	6	1090_1091	c.982_983TC>AT	c.(982-984)TCA>ATA	p.S328I	CD1B_uc001frw.2_Missense_Mutation_p.S166I	NM_001764	NP_001755	P29016	CD1B_HUMAN	CD1B antigen precursor	328	Cytoplasmic (Potential).				antigen processing and presentation|immune response	endosome membrane|integral to membrane|lysosomal membrane|plasma membrane	protein binding			ovary(2)	2	all_hematologic(112;0.0378)					ATTCTGATATGACCTGTTAAAA	0.267													20	30					0	0	0.004672	0	0	
OR6K2	81448	broad.mit.edu	37	1	158669993	158669993	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:158669993A>G	uc001fsu.1	-	1	450	c.450T>C	c.(448-450)TGT>TGC	p.C150C		NM_001005279	NP_001005279	Q8NGY2	OR6K2_HUMAN	olfactory receptor, family 6, subfamily K,	150	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_hematologic(112;0.0378)					TGATAAAGCCACAAACACAGC	0.478													5	85					0	0	0.001168	0	0	
OR6K6	128371	broad.mit.edu	37	1	158724726	158724726	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:158724726C>A	uc001fsw.1	+	1	121	c.121C>A	c.(121-123)CTC>ATC	p.L41I		NM_001005184	NP_001005184	Q8NGW6	OR6K6_HUMAN	olfactory receptor, family 6, subfamily K,	41	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_hematologic(112;0.0378)					GACTGAGTTCCTCTTCTCTAT	0.423													12	123					2.27111e-07	2.4189e-07	0.001368	1	0	
OR6K6	128371	broad.mit.edu	37	1	158725144	158725144	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:158725144G>A	uc001fsw.1	+	1	539	c.539G>A	c.(538-540)GGC>GAC	p.G180D		NM_001005184	NP_001005184	Q8NGW6	OR6K6_HUMAN	olfactory receptor, family 6, subfamily K,	180	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_hematologic(112;0.0378)					TGCTTTTGTGGCTTCCTCCTT	0.478													6	78					0	0	0.001168	0	0	
OR6K6	128371	broad.mit.edu	37	1	158725344	158725344	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:158725344C>T	uc001fsw.1	+	1	739	c.739C>T	c.(739-741)CGG>TGG	p.R247W		NM_001005184	NP_001005184	Q8NGW6	OR6K6_HUMAN	olfactory receptor, family 6, subfamily K,	247	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_hematologic(112;0.0378)					ATCCTACATCCGGATTATTAT	0.478													15	67					0	0	0.004007	0	0	
OR6N1	128372	broad.mit.edu	37	1	158735692	158735692	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:158735692G>A	uc010piq.1	-	1	781	c.781C>T	c.(781-783)CAG>TAG	p.Q261*		NM_001005185	NP_001005185	Q8NGY5	OR6N1_HUMAN	olfactory receptor, family 6, subfamily N,	261	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					TTCTTCAGCTGCACATACATG	0.537													16	163					0	0	0.001882	0	0	
MNDA	4332	broad.mit.edu	37	1	158813117	158813117	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:158813117A>G	uc001fsz.1	+	3	514	c.314A>G	c.(313-315)AAC>AGC	p.N105S		NM_002432	NP_002423	P41218	MNDA_HUMAN	myeloid cell nuclear differentiation antigen	105					B cell receptor signaling pathway|cellular defense response|negative regulation of B cell proliferation|positive regulation of apoptosis|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(2)|skin(2)	4	all_hematologic(112;0.0378)					AAAAAAATAAACCAGGAAGAA	0.428													7	29					0	0	0.004482	0	0	
OR10J1	26476	broad.mit.edu	37	1	159409955	159409955	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:159409955C>T	uc010piv.1	+	1	407	c.407C>T	c.(406-408)GCC>GTC	p.A136V	uc001fts.3_Intron	NM_012351	NP_036483	P30954	O10J1_HUMAN	olfactory receptor, family 10, subfamily J,	136	Cytoplasmic (Potential).				sensory perception of smell|single fertilization	integral to plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0429)					CGCTATGTGGCCATCTGCAAC	0.483													7	93					0	0	0.001984	0	0	
CCDC19	25790	broad.mit.edu	37	1	159850438	159850438	+	Missense_Mutation	SNP	C	T	T	rs138411937		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:159850438C>T	uc001fui.2	-	8	968	c.950G>A	c.(949-951)CGC>CAC	p.R317H	CCDC19_uc009wtb.2_RNA|CCDC19_uc001fuj.2_RNA|CCDC19_uc001fuk.2_Missense_Mutation_p.R232H|CCDC19_uc001ful.2_Missense_Mutation_p.R232H|CCDC19_uc009wtc.1_Missense_Mutation_p.R303H	NM_012337	NP_036469	Q9UL16	CCD19_HUMAN	nasopharyngeal epithelium specific protein 1	317	Potential.					mitochondrion|soluble fraction				ovary(1)	1	all_hematologic(112;0.0597)		BRCA - Breast invasive adenocarcinoma(70;0.151)			ATCATTGATGCGCTTAATCTC	0.463													22	80					0	0	0.002780	0	0	
IGSF9	57549	broad.mit.edu	37	1	159907504	159907504	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:159907504G>A	uc001fur.2	-	4	570	c.372C>T	c.(370-372)AAC>AAT	p.N124N	IGSF9_uc001fuq.2_Silent_p.N124N	NM_001135050	NP_001128522	Q9P2J2	TUTLA_HUMAN	immunoglobulin superfamily, member 9 isoform a	124	Ig-like 1.|Extracellular (Potential).					cell junction|integral to membrane|synapse				ovary(2)|central_nervous_system(2)|large_intestine(1)	5	all_hematologic(112;0.0597)	Breast(1374;0.000126)	BRCA - Breast invasive adenocarcinoma(70;0.111)			CCCAGGAGCCGTTAGCAAAAT	0.592													12	50					0	0	0.004007	0	0	
KCNJ10	3766	broad.mit.edu	37	1	160011659	160011659	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:160011659G>T	uc001fuw.1	-	2	814	c.664C>A	c.(664-666)CAA>AAA	p.Q222K		NM_002241	NP_002232	P78508	IRK10_HUMAN	potassium inwardly-rectifying channel, subfamily	222	Cytoplasmic (By similarity).					integral to plasma membrane	ATP binding|ATP-activated inward rectifier potassium channel activity			ovary(1)	1	all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			TCCTTGGTTTGGTGGGTCTGA	0.527													23	36					1.10923e-09	1.19162e-09	0.002780	1	0	
IGSF8	93185	broad.mit.edu	37	1	160062178	160062178	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:160062178G>A	uc001fva.2	-	5	1665	c.1620C>T	c.(1618-1620)GGC>GGT	p.G540G	IGSF8_uc001fuz.2_Silent_p.G540G|IGSF8_uc009wtf.2_Silent_p.G540G	NM_052868	NP_443100	Q969P0	IGSF8_HUMAN	immunoglobulin superfamily, member 8	540	Ig-like C2-type 4.|Extracellular (Potential).				cell proliferation|cellular component movement|nervous system development|single fertilization|skeletal muscle tissue development	integral to membrane	protein binding				0	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			AGTGGTACACGCCTTCATCCT	0.662													6	25					0	0	0.001984	0	0	
ATP1A4	480	broad.mit.edu	37	1	160151577	160151577	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:160151577G>A	uc001fve.3	+	19	3319	c.2840G>A	c.(2839-2841)CGC>CAC	p.R947H	ATP1A4_uc001fvf.3_RNA|ATP1A4_uc001fvg.2_Missense_Mutation_p.R450H|ATP1A4_uc001fvh.2_Missense_Mutation_p.R83H	NM_144699	NP_653300	Q13733	AT1A4_HUMAN	Na+/K+ -ATPase alpha 4 subunit isoform 1	947	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport|regulation of cellular pH|sperm motility	sodium:potassium-exchanging ATPase complex	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(2)|skin(2)	4	all_cancers(52;2.56e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			AAGACTCGCCGCAACTCACTT	0.527													18	59					0	0	0.003330	0	0	
COPA	1314	broad.mit.edu	37	1	160261166	160261166	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:160261166G>A	uc009wti.2	-	31	3773	c.3379C>T	c.(3379-3381)CGC>TGC	p.R1127C	COPA_uc001fvv.3_Missense_Mutation_p.R1136C	NM_004371	NP_004362	P53621	COPA_HUMAN	coatomer protein complex, subunit alpha isoform	1127					COPI coating of Golgi vesicle|intracellular protein transport|pancreatic juice secretion|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol|extracellular space|microsome|soluble fraction	hormone activity|structural molecule activity			ovary(1)|skin(1)	2	all_cancers(52;8.15e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			TCTAGTAGGCGCCGAGCAAAG	0.547											OREG0013929	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	21	60					0	0	0.001882	0	0	
ARHGAP30	257106	broad.mit.edu	37	1	161022260	161022260	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:161022260G>A	uc001fxl.2	-	8	1256	c.910C>T	c.(910-912)CGT>TGT	p.R304C	ARHGAP30_uc001fxk.2_Missense_Mutation_p.R304C|ARHGAP30_uc001fxm.2_Missense_Mutation_p.R150C|ARHGAP30_uc009wtx.2_5'UTR|ARHGAP30_uc001fxn.1_Missense_Mutation_p.R150C	NM_001025598	NP_001020769	Q7Z6I6	RHG30_HUMAN	Rho GTPase activating protein 30 isoform 1	304					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|upper_aerodigestive_tract(1)	3	all_cancers(52;8.05e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00122)			GGAAGTTTACGCTTAGTCTCA	0.552													69	152					0	0	0.003610	0	0	
ARHGAP30	257106	broad.mit.edu	37	1	161039355	161039355	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:161039355G>A	uc001fxl.2	-	1	406	c.60C>T	c.(58-60)TGC>TGT	p.C20C	ARHGAP30_uc001fxk.2_Silent_p.C20C|ARHGAP30_uc001fxm.2_5'UTR|ARHGAP30_uc009wtx.2_5'UTR|ARHGAP30_uc001fxn.1_5'UTR	NM_001025598	NP_001020769	Q7Z6I6	RHG30_HUMAN	Rho GTPase activating protein 30 isoform 1	20	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|upper_aerodigestive_tract(1)	3	all_cancers(52;8.05e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00122)			CCTGCAAGTCGCACCCAAAAA	0.637													12	42					0	0	0.002450	0	0	
DEDD	9191	broad.mit.edu	37	1	161094125	161094125	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:161094125C>T	uc001fxz.2	-	3	301	c.128G>A	c.(127-129)CGC>CAC	p.R43H	NIT1_uc001fxw.2_3'UTR|DEDD_uc009wty.2_Missense_Mutation_p.R43H|DEDD_uc001fya.2_Missense_Mutation_p.R43H|DEDD_uc001fyb.2_Missense_Mutation_p.R43H|DEDD_uc010pkb.1_Intron|DEDD_uc001fyc.2_Intron	NM_001039712	NP_001034801	O75618	DEDD_HUMAN	death effector domain-containing protein	43	DED.				apoptosis|induction of apoptosis via death domain receptors|negative regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding				0	all_cancers(52;3.39e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00165)			AGAAAGCACGCGCACATCTCT	0.547													6	42					0	0	0.001168	0	0	
USP21	27005	broad.mit.edu	37	1	161130563	161130563	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:161130563C>T	uc010pke.1	+	3	510	c.133C>T	c.(133-135)CCA>TCA	p.P45S	USP21_uc010pkc.1_Missense_Mutation_p.P45S|USP21_uc010pkd.1_Missense_Mutation_p.P45S|USP21_uc010pkf.1_Missense_Mutation_p.P45S	NM_001014443	NP_001014443	Q9UK80	UBP21_HUMAN	ubiquitin-specific protease 21	45					histone deubiquitination|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	nucleus	metal ion binding|NEDD8-specific protease activity|protein binding|transcription coactivator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)|lung(1)|prostate(1)|breast(1)	5	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			AGCCTCTGGGCCAAACCCCAT	0.632													13	32					0	0	0.004990	0	0	
NDUFS2	4720	broad.mit.edu	37	1	161180180	161180180	+	Splice_Site	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:161180180G>T	uc001fyv.2	+	9	1314	c.866_splice	c.e9+1	p.S289_splice	NDUFS2_uc010pki.1_Splice_Site_p.S191_splice|NDUFS2_uc001fyw.2_Splice_Site_p.S289_splice|NDUFS2_uc010pkj.1_Splice_Site_p.S238_splice|NDUFS2_uc001fyx.2_Splice_Site_p.S263_splice	NM_004550	NP_004541	O75306	NDUS2_HUMAN	NADH dehydrogenase (ubiquinone) Fe-S protein 2						mitochondrial electron transport, NADH to ubiquinone|response to oxidative stress|transport	mitochondrial respiratory chain complex I	4 iron, 4 sulfur cluster binding|electron carrier activity|metal ion binding|NAD binding|NADH dehydrogenase (ubiquinone) activity|protein binding|quinone binding			skin(1)	1	all_cancers(52;1.16e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		NADH(DB00157)	ATGGTTTTAGGTGAGGGGAAT	0.458											OREG0013941	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	101					1.58986e-06	1.6861e-06	0.008291	1	0	
MPZ	4359	broad.mit.edu	37	1	161277190	161277190	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:161277190A>G	uc001gaf.3	-	2	159	c.122T>C	c.(121-123)GTG>GCG	p.V41A	MPZ_uc010pko.1_RNA	NM_000530	NP_000521	P25189	MYP0_HUMAN	myelin protein zero	31	Ig-like V-type.|Extracellular (Potential).				synaptic transmission	integral to plasma membrane	structural molecule activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4	all_cancers(52;6.96e-17)|all_hematologic(112;0.093)	Breast(1374;0.181)	BRCA - Breast invasive adenocarcinoma(70;0.00376)			GGTGTAAACCACGATGGCCTG	0.577													9	18					0	0	0.004482	0	0	
HSPA6	3310	broad.mit.edu	37	1	161495324	161495324	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:161495324C>T	uc001gap.2	+	2	1536	c.876C>T	c.(874-876)GGC>GGT	p.G292G	HSPA6_uc001gaq.2_Silent_p.G292G	NM_002155	NP_002146	P17066	HSP76_HUMAN	heat shock 70kDa protein 6 (HSP70B')	292					response to unfolded protein		ATP binding			skin(1)	1	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			TGTTCGAGGGCGTGGACTTCT	0.657													8	19					0	0	0.003080	0	0	
FCGR3A	2214	broad.mit.edu	37	1	161514508	161514508	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:161514508T>C	uc001gat.3	-	5	697	c.560A>G	c.(559-561)AAC>AGC	p.N187S	FCGR3A_uc001gar.2_Missense_Mutation_p.N223S|FCGR3A_uc001gas.2_Missense_Mutation_p.N222S|FCGR3A_uc009wuh.2_Missense_Mutation_p.N186S|FCGR3A_uc009wui.2_Missense_Mutation_p.N187S	NM_001127595	NP_001121067	P08637	FCG3A_HUMAN	Fc fragment of IgG, low affinity IIIa, receptor	187	Extracellular (Potential).|Ig-like C2-type 2.				immune response|regulation of immune response	extracellular region|integral to membrane|plasma membrane	IgG binding|receptor activity			ovary(1)	1	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	GATGGTGATGTTCACAGTCTC	0.502													3	26					0	0	0.004672	0	0	
FCGR3B	2215	broad.mit.edu	37	1	161599810	161599810	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:161599810G>A	uc009wul.2	-	3	351	c.77C>T	c.(76-78)GCT>GTT	p.A26V		NM_000570	NP_000561	O75015	FCG3B_HUMAN	low affinity immunoglobulin gamma Fc region	26					immune response	anchored to membrane|extracellular region|plasma membrane	IgG binding|receptor activity				0	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	GAACACCACAGCCTTTGGGAG	0.552													16	37					0	0	0.004990	0	0	
OLFML2B	25903	broad.mit.edu	37	1	161967927	161967927	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:161967927G>A	uc001gbu.2	-	6	1586	c.1162C>T	c.(1162-1164)CAT>TAT	p.H388Y	OLFML2B_uc010pkq.1_Missense_Mutation_p.H389Y	NM_015441	NP_056256	Q68BL8	OLM2B_HUMAN	olfactomedin-like 2B precursor	388										skin(1)	1	all_hematologic(112;0.156)		BRCA - Breast invasive adenocarcinoma(70;0.0172)			ACTGAGGCATGGTTGGCGATG	0.607													29	65					0	0	0.006320	0	0	
UHMK1	127933	broad.mit.edu	37	1	162473601	162473601	+	Missense_Mutation	SNP	G	A	A	rs150990527		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:162473601G>A	uc001gcc.1	+	4	947	c.811G>A	c.(811-813)GCA>ACA	p.A271T	UHMK1_uc001gcb.1_Missense_Mutation_p.A197T|UHMK1_uc009wuu.1_Missense_Mutation_p.A271T	NM_175866	NP_787062	Q8TAS1	UHMK1_HUMAN	kinase interacting stathmin	271	Protein kinase.				cell cycle arrest|neuron projection development|peptidyl-serine phosphorylation|positive regulation of translational initiation|protein autophosphorylation|regulation of protein export from nucleus	axon|dendrite cytoplasm|neuronal RNA granule|nucleus	protein binding|protein serine/threonine kinase activity|ribonucleoprotein binding|RNA binding				0	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.126)			GGTGAATGCCGCAATTCCAGC	0.373													15	32					0	0	0.006122	0	0	
PBX1	5087	broad.mit.edu	37	1	164769123	164769123	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:164769123C>T	uc001gct.2	+	4	956	c.698C>T	c.(697-699)GCG>GTG	p.A233V	PBX1_uc010pku.1_Missense_Mutation_p.A233V|PBX1_uc010pkv.1_Missense_Mutation_p.A150V|PBX1_uc001gcs.2_Missense_Mutation_p.A233V|PBX1_uc010pkw.1_Missense_Mutation_p.A123V	NM_002585	NP_002576	P40424	PBX1_HUMAN	pre-B-cell leukemia homeobox 1	233	Homeobox; TALE-type.				negative regulation of sequence-specific DNA binding transcription factor activity|sex differentiation|steroid biosynthetic process	cytoplasm|nucleus	sequence-specific DNA binding transcription factor activity|transcription factor binding		EWSR1/PBX1(3)	soft_tissue(3)|lung(1)|skin(1)	5						TTTCTGGATGCGCGGTGAGTC	0.612			T	TCF3|EWSR1	pre B-ALL|myoepithelioma								4	16					0	0	0.009096	0	0	
LMX1A	4009	broad.mit.edu	37	1	165322399	165322399	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:165322399G>A	uc001gcy.1	-	2	398	c.177C>T	c.(175-177)TGC>TGT	p.C59C	LMX1A_uc001gcz.1_Silent_p.C59C	NM_177398	NP_796372	Q8TE12	LMX1A_HUMAN	LIM homeobox transcription factor 1, alpha	59	LIM zinc-binding 1.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(3)|upper_aerodigestive_tract(1)|pancreas(1)	5	all_hematologic(923;0.248)					CGCACTGCACGCACTGCTCAT	0.592													9	23					0	0	0.008291	0	0	
DUSP27	92235	broad.mit.edu	37	1	167096298	167096298	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:167096298G>A	uc001geb.1	+	5	1930	c.1930G>A	c.(1930-1932)GCA>ACA	p.A644T		NM_001080426	NP_001073895	Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27	644					protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			ovary(3)	3						CCAGTCTATGGCAAGCTGGGA	0.642													3	7					0	0	0.004672	0	0	
CD247	919	broad.mit.edu	37	1	167400950	167400950	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:167400950C>T	uc001gei.3	-	8	608	c.463G>A	c.(463-465)GCC>ACC	p.A155T	CD247_uc001gej.3_Missense_Mutation_p.A154T	NM_198053	NP_932170	P20963	CD3Z_HUMAN	T-cell receptor zeta chain isoform 1 precursor	155	ITAM 3.|Cytoplasmic (Potential).				interspecies interaction between organisms|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|viral reproduction	cytoplasm|integral to membrane	protein homodimerization activity|transmembrane receptor activity				0			LUSC - Lung squamous cell carcinoma(543;0.236)			ATGTGAAGGGCGTCGTAGGTG	0.567													19	53					0	0	0.001882	0	0	
GPR161	23432	broad.mit.edu	37	1	168065850	168065850	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:168065850C>T	uc001gfc.2	-	5	1309	c.995G>A	c.(994-996)CGC>CAC	p.R332H	GPR161_uc001gfb.2_Missense_Mutation_p.R200H|GPR161_uc010pll.1_Missense_Mutation_p.R242H|GPR161_uc010plm.1_Missense_Mutation_p.R218H|GPR161_uc009wvo.2_Missense_Mutation_p.R349H|GPR161_uc001gfd.2_Missense_Mutation_p.R332H|GPR161_uc010pln.1_Missense_Mutation_p.R352H|GPR161_uc001gfe.1_Missense_Mutation_p.R332H	NM_153832	NP_722561	Q8N6U8	GP161_HUMAN	G protein-coupled receptor 161 isoform 2	332	Cytoplasmic (Potential).				multicellular organismal development	integral to membrane|plasma membrane	G-protein coupled receptor activity				0	all_hematologic(923;0.215)					TAGTTCTTTGCGAACTGTCTT	0.552													7	50					0	0	0.006214	0	0	
SELL	6402	broad.mit.edu	37	1	169672454	169672454	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:169672454C>A	uc001ggk.2	-	6	1092	c.894G>T	c.(892-894)AAG>AAT	p.K298N	C1orf112_uc001ggj.2_Intron|SELL_uc010pls.1_Missense_Mutation_p.K251N|SELL_uc001ggl.1_Missense_Mutation_p.K311N	NM_000655	NP_000646	P14151	LYAM1_HUMAN	selectin L precursor	298	Extracellular (Potential).|Sushi 2.				blood coagulation|cell adhesion|leukocyte migration|regulation of immune response	integral to plasma membrane	glycosphingolipid binding|heparin binding|protease binding|sugar binding				0	all_hematologic(923;0.208)					TGGTTTTCTTCTTCCCAATTA	0.423													4	56					0.00909568	0.0094242	0.009096	1	0	
SELE	6401	broad.mit.edu	37	1	169697058	169697058	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:169697058G>A	uc001ggm.3	-	9	1447	c.1290C>T	c.(1288-1290)TGC>TGT	p.C430C	C1orf112_uc001ggj.2_Intron	NM_000450	NP_000441	P16581	LYAM2_HUMAN	selectin E precursor	430	Extracellular (Potential).|Sushi 5.				actin filament-based process|activation of phospholipase C activity|calcium-mediated signaling|heterophilic cell-cell adhesion|leukocyte migration involved in inflammatory response|leukocyte tethering or rolling|positive regulation of receptor internalization|regulation of inflammatory response|response to interleukin-1|response to lipopolysaccharide|response to tumor necrosis factor	caveola|coated pit|cortical cytoskeleton|extracellular space|integral to membrane|perinuclear region of cytoplasm	oligosaccharide binding|phospholipase binding|sialic acid binding|transmembrane receptor activity			ovary(3)|skin(2)	5	all_hematologic(923;0.208)					GGACAGCATCGCATCTCACAG	0.502													6	71					0	0	0.004482	0	0	
SCYL3	57147	broad.mit.edu	37	1	169823904	169823904	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:169823904T>C	uc001ggs.2	-	13	1874	c.1676A>G	c.(1675-1677)CAG>CGG	p.Q559R	SCYL3_uc010plw.1_Missense_Mutation_p.Q151R|SCYL3_uc001ggt.2_Missense_Mutation_p.Q505R|SCYL3_uc001ggu.2_RNA	NM_181093	NP_851607	Q8IZE3	PACE1_HUMAN	SCY1-like 3 isoform 2	559	Interaction with EZR.				cell migration	Golgi apparatus|lamellipodium	ATP binding|protein binding|protein kinase activity			ovary(1)|skin(1)	2	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					GGTAGTGCACTGGGACTTGAC	0.478													5	142					0	0	0.001168	0	0	
FMO2	2327	broad.mit.edu	37	1	171178010	171178010	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:171178010C>T	uc001ghk.1	+	9	1451	c.1334C>T	c.(1333-1335)GCG>GTG	p.A445V	FMO2_uc010pmd.1_Missense_Mutation_p.A225V	NM_001460	NP_001451	Q99518	FMO2_HUMAN	flavin containing monooxygenase 2	445					drug metabolic process|NADPH oxidation|organic acid metabolic process|toxin metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|host cell microsome|integral to membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					GAGATAGGTGCGAAGCCAGAT	0.473													24	215					0	0	0.005443	0	0	
FMO1	2326	broad.mit.edu	37	1	171252297	171252297	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:171252297C>T	uc009wvz.2	+	8	1334	c.1198C>T	c.(1198-1200)CCA>TCA	p.P400S	FMO1_uc010pme.1_Missense_Mutation_p.P337S|FMO1_uc001ghl.2_Missense_Mutation_p.P400S|FMO1_uc001ghm.2_Missense_Mutation_p.P400S|FMO1_uc001ghn.2_Intron	NM_002021	NP_002012	Q01740	FMO1_HUMAN	flavin containing monooxygenase 1	400					NADPH oxidation|organic acid metabolic process|toxin metabolic process|xenobiotic metabolic process	endoplasmic reticulum lumen|integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					AAATAAGTTACCACCACCAAG	0.338													12	158					0	0	0.001368	0	0	
BAT2L2	23215	broad.mit.edu	37	1	171509407	171509407	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:171509407G>A	uc010pmg.1	+	16	3062	c.2796G>A	c.(2794-2796)ACG>ACA	p.T932T	BAT2L2_uc010pmh.1_5'UTR	NM_015172	NP_055987	Q9Y520	PRC2C_HUMAN	HBxAg transactivated protein 2	932							protein C-terminus binding				0						CTAACCATACGCAAAAACCAG	0.458													5	71					0	0	0.001984	0	0	
C1orf9	51430	broad.mit.edu	37	1	172558919	172558919	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:172558919A>T	uc001giq.3	+	18	2994	c.2678A>T	c.(2677-2679)AAT>ATT	p.N893I	C1orf9_uc010pmm.1_Missense_Mutation_p.N893I|C1orf9_uc009wwd.2_Missense_Mutation_p.N849I|C1orf9_uc010pmn.1_Intron|C1orf9_uc010pmo.1_RNA	NM_014283	NP_055098	Q9UBS9	OSPT_HUMAN	chromosome 1 open reading frame 9 protein	893					multicellular organismal development|ossification	integral to membrane|rough endoplasmic reticulum membrane				ovary(2)	2		Breast(1374;0.212)		Colorectal(1306;3.98e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00544)		GAATTGCAAAATTCTACAGAT	0.353													4	159					0	0	0.000602	0	0	
TNFSF18	8995	broad.mit.edu	37	1	173019955	173019955	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:173019955G>A	uc001giu.2	-	1	149	c.148C>T	c.(148-150)CTC>TTC	p.L50F		NM_005092	NP_005083	Q9UNG2	TNF18_HUMAN	tumor necrosis factor (ligand) superfamily,	50	Cytoplasmic (Potential).				anti-apoptosis|cell-cell signaling|immune response|signal transduction	extracellular space|integral to membrane	cytokine activity|tumor necrosis factor receptor binding			central_nervous_system(1)	1						GAGCAAAAGAGCCACAGCTTC	0.393													16	41					0	0	0.006122	0	0	
SLC9A11	284525	broad.mit.edu	37	1	173526586	173526586	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:173526586G>A	uc001giz.2	-	10	1531	c.1108C>T	c.(1108-1110)CGA>TGA	p.R370*	SLC9A11_uc009wwe.2_5'UTR|SLC9A11_uc010pmq.1_RNA	NM_178527	NP_848622	Q5TAH2	S9A11_HUMAN	solute carrier family 9, member 11	370					sodium ion transport	integral to membrane	ion channel activity|solute:hydrogen antiporter activity			ovary(2)	2						ACTCCCCATCGCCAATTATAT	0.368													7	165					0	0	0.004482	0	0	
GPR52	9293	broad.mit.edu	37	1	174417499	174417499	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:174417499G>A	uc001gka.1	+	1	288	c.250G>A	c.(250-252)GCA>ACA	p.A84T	RABGAP1L_uc001gjw.2_Intron|RABGAP1L_uc001gjx.2_Intron|RABGAP1L_uc001gjy.2_Intron|RABGAP1L_uc001gjz.2_Intron	NM_005684	NP_005675	Q9Y2T5	GPR52_HUMAN	G protein-coupled receptor 52	84	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity			skin(1)	1						TCAGACGATGGCATATGCTGA	0.423													40	151					0	0	0.003610	0	0	
GPR52	9293	broad.mit.edu	37	1	174417942	174417942	+	Silent	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:174417942T>A	uc001gka.1	+	1	731	c.693T>A	c.(691-693)CGT>CGA	p.R231R	RABGAP1L_uc001gjw.2_Intron|RABGAP1L_uc001gjx.2_Intron|RABGAP1L_uc001gjy.2_Intron|RABGAP1L_uc001gjz.2_Intron|uc010pmu.1_RNA	NM_005684	NP_005675	Q9Y2T5	GPR52_HUMAN	G protein-coupled receptor 52	231	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity			skin(1)	1						AAATTTGCCGTCAGCACACCA	0.458													6	130					0	0	0.001168	0	0	
MRPS14	63931	broad.mit.edu	37	1	174987651	174987651	+	Missense_Mutation	SNP	C	T	T	rs147012061		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:174987651C>T	uc001gkk.2	-	2	124	c.107G>A	c.(106-108)CGC>CAC	p.R36H	MRPS14_uc009wwr.2_Missense_Mutation_p.R21H	NM_022100	NP_071383	O60783	RT14_HUMAN	mitochondrial ribosomal protein S14	36					translation	mitochondrial ribosome	protein binding|structural constituent of ribosome				0						CTTCACATCGCGCCACATTCT	0.438													15	80					0	0	0.002450	0	0	
TNN	63923	broad.mit.edu	37	1	175046767	175046767	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:175046767G>A	uc001gkl.1	+	2	326	c.213G>A	c.(211-213)TCG>TCA	p.S71S	TNN_uc010pmx.1_Silent_p.S71S	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	71					cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		ATGGGGCTTCGCTCTTGGCCC	0.587													4	17					0	0	0.009096	0	0	
ASTN1	460	broad.mit.edu	37	1	176833575	176833575	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:176833575G>A	uc001glc.2	-	23	3942	c.3730C>T	c.(3730-3732)CGG>TGG	p.R1244W	ASTN1_uc001glb.1_Intron	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	1252					cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						GAGCTGCGCCGCAAGCTTATC	0.567													19	40					0	0	0.008871	0	0	
RALGPS2	55103	broad.mit.edu	37	1	178855202	178855202	+	Missense_Mutation	SNP	C	T	T	rs149978883		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:178855202C>T	uc001glz.2	+	13	1477	c.1139C>T	c.(1138-1140)GCG>GTG	p.A380V	RALGPS2_uc010pnb.1_Missense_Mutation_p.A380V	NM_152663	NP_689876	Q86X27	RGPS2_HUMAN	Ral GEF with PH domain and SH3 binding motif 2	380					small GTPase mediated signal transduction	cytoplasm|plasma membrane	guanyl-nucleotide exchange factor activity|protein binding				0						GAGCCCCATGCGCCATCTCGA	0.393													28	63					0	0	0.009535	0	0	
ABL2	27	broad.mit.edu	37	1	179077318	179077318	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:179077318G>A	uc001gmj.3	-	12	3371	c.3084C>T	c.(3082-3084)GGC>GGT	p.G1028G	ABL2_uc010pnf.1_Silent_p.G925G|ABL2_uc010png.1_Silent_p.G904G|ABL2_uc010pnh.1_Silent_p.G1007G|ABL2_uc001gmg.3_Silent_p.G910G|ABL2_uc001gmi.3_Silent_p.G1013G|ABL2_uc001gmh.3_Silent_p.G992G|ABL2_uc010pne.1_Silent_p.G889G	NM_007314	NP_009298	P42684	ABL2_HUMAN	arg tyrosine kinase isoform b	1028	Pro-rich.|F-actin-binding (By similarity).				axon guidance|cell adhesion|peptidyl-tyrosine phosphorylation|positive regulation of oxidoreductase activity|signal transduction	cytoskeleton|cytosol	ATP binding|magnesium ion binding|manganese ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(8)|breast(3)|ovary(2)|central_nervous_system(1)	14					Adenosine triphosphate(DB00171)|Dasatinib(DB01254)	TGGGCACTGCGCCCAGAGCTG	0.567			T	ETV6	AML								18	49					0	0	0.006122	0	0	
ABL2	27	broad.mit.edu	37	1	179078138	179078138	+	Missense_Mutation	SNP	C	T	T	rs147435995		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:179078138C>T	uc001gmj.3	-	12	2551	c.2264G>A	c.(2263-2265)CGC>CAC	p.R755H	ABL2_uc010pnf.1_Intron|ABL2_uc010png.1_Intron|ABL2_uc010pnh.1_Missense_Mutation_p.R734H|ABL2_uc001gmg.3_Intron|ABL2_uc001gmi.3_Missense_Mutation_p.R740H|ABL2_uc001gmh.3_Missense_Mutation_p.R719H|ABL2_uc010pne.1_Intron	NM_007314	NP_009298	P42684	ABL2_HUMAN	arg tyrosine kinase isoform b	755	F-actin-binding (By similarity).				axon guidance|cell adhesion|peptidyl-tyrosine phosphorylation|positive regulation of oxidoreductase activity|signal transduction	cytoskeleton|cytosol	ATP binding|magnesium ion binding|manganese ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(8)|breast(3)|ovary(2)|central_nervous_system(1)	14					Adenosine triphosphate(DB00171)|Dasatinib(DB01254)	TTTGATTAAGCGTGGTGTAAA	0.532			T	ETV6	AML								16	59					0	0	0.004007	0	0	
C1orf125	126859	broad.mit.edu	37	1	179414261	179414261	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:179414261C>T	uc001gmo.2	+	16	1847	c.1720C>T	c.(1720-1722)CGA>TGA	p.R574*	C1orf125_uc009wxg.2_Intron|C1orf125_uc001gmn.1_Nonsense_Mutation_p.R362*|C1orf125_uc010pnl.1_RNA|C1orf125_uc001gmp.2_Nonsense_Mutation_p.R574*	NM_144696	NP_653297	Q5T1B0	AXDN1_HUMAN	hypothetical protein LOC126859 isoform 1	574	Potential.										0						GCCATCAGAGCGACAGTACAT	0.338													7	74					0	0	0.001984	0	0	
TDRD5	163589	broad.mit.edu	37	1	179620046	179620046	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:179620046C>T	uc001gnf.1	+	12	2095	c.1845C>T	c.(1843-1845)TGC>TGT	p.C615C	TDRD5_uc010pnp.1_Silent_p.C615C|TDRD5_uc001gnh.1_Silent_p.C170C	NM_173533	NP_775804	Q8NAT2	TDRD5_HUMAN	tudor domain containing 5	615					DNA methylation involved in gamete generation|P granule organization|spermatid development	chromatoid body|pi-body	nucleic acid binding			ovary(2)|skin(2)|central_nervous_system(1)	5						AGAAGTTGTGCGGTTTGAAGC	0.368													24	89					0	0	0.006320	0	0	
CEP350	9857	broad.mit.edu	37	1	180010286	180010286	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:180010286G>A	uc001gnt.2	+	18	4507	c.4124G>A	c.(4123-4125)CGC>CAC	p.R1375H	CEP350_uc009wxl.2_Missense_Mutation_p.R1374H	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350	1375	Potential.					centrosome|nucleus|spindle				ovary(4)	4						CAACAGCAACGCCATGAAAGA	0.393													11	30					0	0	0.001368	0	0	
XPR1	9213	broad.mit.edu	37	1	180780557	180780557	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:180780557G>T	uc001goi.2	+	7	888	c.696G>T	c.(694-696)TGG>TGT	p.W232C	XPR1_uc009wxm.2_Missense_Mutation_p.W232C|XPR1_uc009wxn.2_Missense_Mutation_p.W232C	NM_004736	NP_004727	Q9UBH6	XPR1_HUMAN	xenotropic and polytropic retrovirus receptor	232	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity				0						CACCAGCATGGACTACTTTTA	0.328													14	28					1.15088e-07	1.22702e-07	0.004007	1	0	
XPR1	9213	broad.mit.edu	37	1	180849411	180849411	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:180849411C>T	uc001goi.2	+	14	2200	c.2008C>T	c.(2008-2010)CGC>TGC	p.R670C	XPR1_uc009wxn.2_Missense_Mutation_p.R605C	NM_004736	NP_004727	Q9UBH6	XPR1_HUMAN	xenotropic and polytropic retrovirus receptor	670	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity				0						CATATCCCTGCGCCGGCCTCG	0.473													19	56					0	0	0.010504	0	0	
STX6	10228	broad.mit.edu	37	1	180974435	180974435	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:180974435G>A	uc010pnq.1	-	2	437	c.200C>T	c.(199-201)ACC>ATC	p.T67I	STX6_uc001goo.2_Missense_Mutation_p.T67I|STX6_uc010pnr.1_Intron	NM_005819	NP_005810	O43752	STX6_HUMAN	syntaxin 6	67	Potential.|Cytoplasmic (Potential).				Golgi vesicle transport|intracellular protein transport|vesicle fusion	clathrin-coated vesicle|early endosome|integral to membrane|perinuclear region of cytoplasm|plasma membrane|trans-Golgi network membrane	SNAP receptor activity			ovary(1)	1						GATATTGATGGTTTCATCAAG	0.438													10	126					0	0	0.008291	0	0	
CACNA1E	777	broad.mit.edu	37	1	181706782	181706782	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:181706782C>T	uc001gow.2	+	23	3709	c.3544C>T	c.(3544-3546)CGC>TGC	p.R1182C	CACNA1E_uc009wxs.2_Missense_Mutation_p.R1070C|CACNA1E_uc001gox.1_Missense_Mutation_p.R408C|CACNA1E_uc009wxt.2_Missense_Mutation_p.R408C	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	1182	Extracellular (Potential).|III.				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						CAACTCGGAGCGCAACAAAGT	0.597													11	50					0	0	0.001368	0	0	
CACNA1E	777	broad.mit.edu	37	1	181732597	181732597	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:181732597G>A	uc001gow.2	+	34	4910	c.4745G>A	c.(4744-4746)CGC>CAC	p.R1582H	CACNA1E_uc009wxs.2_Missense_Mutation_p.R1470H|CACNA1E_uc001gox.1_Missense_Mutation_p.R808H|CACNA1E_uc009wxt.2_Missense_Mutation_p.R808H	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	1582	Helical; Name=S4 of repeat IV.|IV.				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						CGAGCTGCCCGCCTCATAAAG	0.473													17	41					0	0	0.004990	0	0	
RNASEL	6041	broad.mit.edu	37	1	182550411	182550411	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:182550411C>T	uc001gpj.1	-	4	2021	c.1854G>A	c.(1852-1854)CTG>CTA	p.L618L	RNASEL_uc009wxz.1_Silent_p.L618L|RNASEL_uc001gpk.2_Silent_p.L618L	NM_021133	NP_066956	Q05823	RN5A_HUMAN	ribonuclease L	618	KEN.				mRNA processing|response to virus|type I interferon-mediated signaling pathway	mitochondrion	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|metal ion binding|protein kinase activity|RNA binding			ovary(4)|stomach(1)	5						GCCCAGGTTGCAGTAGTCTGA	0.423									Hereditary_Prostate_Cancer				43	128					0	0	0.002522	0	0	
C1orf14	81626	broad.mit.edu	37	1	182872293	182872293	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:182872293C>T	uc001gpu.2	-	9	1876	c.1591G>A	c.(1591-1593)GCT>ACT	p.A531T	C1orf14_uc001gpv.2_Missense_Mutation_p.A412T|C1orf14_uc010pnz.1_Missense_Mutation_p.A389T|C1orf14_uc001gpw.2_Missense_Mutation_p.A251T	NM_030933	NP_112195	Q9BZQ2	SHP1L_HUMAN	chromosome 1 open reading frame 14	603	PbH1 2.										0				Colorectal(1306;1.64e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00267)		TCAACACCAGCACCCTGTAAA	0.328													28	88					0	0	0.009535	0	0	
C1orf14	81626	broad.mit.edu	37	1	182873320	182873320	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:182873320C>T	uc001gpu.2	-	8	1867	c.1582G>A	c.(1582-1584)GCC>ACC	p.A528T	C1orf14_uc001gpv.2_Missense_Mutation_p.A409T|C1orf14_uc010pnz.1_Missense_Mutation_p.A386T|C1orf14_uc001gpw.2_Missense_Mutation_p.A248T	NM_030933	NP_112195	Q9BZQ2	SHP1L_HUMAN	chromosome 1 open reading frame 14	600	PbH1 2.										0				Colorectal(1306;1.64e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00267)		AATACCTGGGCGCCAGTTATT	0.363													8	83					0	0	0.003080	0	0	
LAMC1	3915	broad.mit.edu	37	1	183105532	183105532	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:183105532C>T	uc001gpy.3	+	25	4383	c.4126C>T	c.(4126-4128)CGT>TGT	p.R1376C		NM_002293	NP_002284	P11047	LAMC1_HUMAN	laminin, gamma 1 precursor	1376	Potential.|Domain II and I.				axon guidance|cell migration|endoderm development|extracellular matrix disassembly|hemidesmosome assembly|positive regulation of epithelial cell proliferation|protein complex assembly|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	extracellular matrix structural constituent			ovary(3)|large_intestine(1)|kidney(1)	5					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TTTTGATAGGCGTGTGAACGA	0.453													8	29					0	0	0.008291	0	0	
EDEM3	80267	broad.mit.edu	37	1	184671996	184671996	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:184671996G>A	uc010pok.1	-	19	2599	c.2338C>T	c.(2338-2340)CGG>TGG	p.R780W	EDEM3_uc010pol.1_RNA|EDEM3_uc010pom.1_Missense_Mutation_p.R780W	NM_025191	NP_079467	Q9BZQ6	EDEM3_HUMAN	ER degradation enhancer, mannosidase alpha-like	780					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|response to unfolded protein	endoplasmic reticulum lumen|endoplasmic reticulum membrane	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity|misfolded protein binding			skin(1)	1						TCATATTCCCGGATGGCATCC	0.393													15	51					0	0	0.004007	0	0	
EDEM3	80267	broad.mit.edu	37	1	184692925	184692925	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:184692925G>A	uc010pok.1	-	8	1074	c.813C>T	c.(811-813)GGC>GGT	p.G271G	EDEM3_uc010pol.1_RNA|EDEM3_uc010pom.1_Silent_p.G271G|EDEM3_uc001gqy.2_Silent_p.G194G	NM_025191	NP_079467	Q9BZQ6	EDEM3_HUMAN	ER degradation enhancer, mannosidase alpha-like	271					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|response to unfolded protein	endoplasmic reticulum lumen|endoplasmic reticulum membrane	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity|misfolded protein binding			skin(1)	1						TTATAGTCACGCCCACTAAAT	0.318													31	90					0	0	0.006230	0	0	
FAM129A	116496	broad.mit.edu	37	1	184764913	184764913	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:184764913T>C	uc001gra.2	-	14	2179	c.1985A>G	c.(1984-1986)GAC>GGC	p.D662G	FAM129A_uc001grb.1_Intron	NM_052966	NP_443198	Q9BZQ8	NIBAN_HUMAN	niban protein isoform 2	662					negative regulation of protein phosphorylation|positive regulation of protein phosphorylation|positive regulation of translation|response to endoplasmic reticulum stress	cytoplasm|nucleus|plasma membrane				ovary(3)|skin(1)	4						CACCACGGGGTCATCCACTCT	0.572													11	36					0	0	0.001368	0	0	
FAM129A	116496	broad.mit.edu	37	1	184777283	184777283	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:184777283C>T	uc001gra.2	-	10	1454	c.1260G>A	c.(1258-1260)CTG>CTA	p.L420L	FAM129A_uc001grb.1_Silent_p.L183L|FAM129A_uc009wyh.1_Silent_p.L248L|FAM129A_uc009wyi.1_Silent_p.L218L	NM_052966	NP_443198	Q9BZQ8	NIBAN_HUMAN	niban protein isoform 2	420					negative regulation of protein phosphorylation|positive regulation of protein phosphorylation|positive regulation of translation|response to endoplasmic reticulum stress	cytoplasm|nucleus|plasma membrane				ovary(3)|skin(1)	4						TGAGATCCTGCAGGCGCTCGT	0.522													26	87					0	0	0.002445	0	0	
C1orf25	81627	broad.mit.edu	37	1	185112528	185112528	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:185112528G>A	uc001grf.3	-	7	1092	c.820C>T	c.(820-822)CGA>TGA	p.R274*	C1orf25_uc010pon.1_Nonsense_Mutation_p.R118*	NM_030934	NP_112196	Q7Z2T5	TRM1L_HUMAN	N2,N2-dimethylguanosine tRNA	274						intracellular	RNA binding|tRNA (guanine-N2-)-methyltransferase activity|zinc ion binding				0						AAAGGTTTTCGTTCCTCAGCC	0.353													9	75					0	0	0.006214	0	0	
HMCN1	83872	broad.mit.edu	37	1	185985117	185985117	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:185985117C>T	uc001grq.1	+	32	5166	c.4937C>T	c.(4936-4938)GCC>GTC	p.A1646V		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	1646	Ig-like C2-type 14.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						GGCAACTTGGCCACGCCTTTG	0.403													15	60					0	0	0.003163	0	0	
HMCN1	83872	broad.mit.edu	37	1	186147696	186147696	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:186147696C>T	uc001grq.1	+	104	16321	c.16092C>T	c.(16090-16092)GGC>GGT	p.G5364G	HMCN1_uc001grs.1_Intron	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	5364					response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						CAAATTATGGCACTCAATACA	0.483													23	176					0	0	0.003954	0	0	
HMCN1	83872	broad.mit.edu	37	1	186147722	186147722	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:186147722C>T	uc001grq.1	+	104	16347	c.16118C>T	c.(16117-16119)GCA>GTA	p.A5373V	HMCN1_uc001grs.1_Intron	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	5373					response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						TATAACCTTGCACGGTTCTCC	0.453													48	174					0	0	0.003610	0	0	
HMCN1	83872	broad.mit.edu	37	1	186158685	186158685	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:186158685C>T	uc001grq.1	+	107	16812	c.16583C>T	c.(16582-16584)GCC>GTC	p.A5528V	HMCN1_uc001grs.1_Missense_Mutation_p.A980V	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	5528					response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						TTGGAATGTGCCTTGAGCCCA	0.443													4	68					0	0	0.000602	0	0	
HMCN1	83872	broad.mit.edu	37	1	186158913	186158913	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:186158913G>A	uc001grq.1	+	107	17040	c.16811G>A	c.(16810-16812)CGC>CAC	p.R5604H	HMCN1_uc001grs.1_Missense_Mutation_p.R1056H	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	5604					response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						GAGACCTACCGCATGAGGGTC	0.468													12	49					0	0	0.000978	0	0	
PRG4	10216	broad.mit.edu	37	1	186276100	186276100	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:186276100A>C	uc001gru.3	+	7	1300	c.1249A>C	c.(1249-1251)ACC>CCC	p.T417P	PRG4_uc001grt.3_Missense_Mutation_p.T376P|PRG4_uc009wyl.2_Missense_Mutation_p.T324P|PRG4_uc009wym.2_Missense_Mutation_p.T283P|PRG4_uc010poo.1_Intron	NM_005807	NP_005798	Q92954	PRG4_HUMAN	proteoglycan 4 isoform A	417	9.|59 X 8 AA repeats of K-X-P-X-P-T-T-X.				cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						ACCCACCACCACCAAGGAGCC	0.652													6	31					0	0	0.000978	0	0	
TPR	7175	broad.mit.edu	37	1	186312540	186312540	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:186312540C>T	uc001grv.2	-	27	3965	c.3668G>A	c.(3667-3669)CGT>CAT	p.R1223H		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	1223	Potential.				carbohydrate metabolic process|glucose transport|mitotic cell cycle spindle assembly checkpoint|mRNA transport|protein import into nucleus|regulation of glucose transport|seryl-tRNA aminoacylation|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytoplasm|nuclear membrane|nuclear pore|nucleoplasm	ATP binding|protein binding|serine-tRNA ligase activity			ovary(2)|lung(2)|urinary_tract(1)|central_nervous_system(1)|skin(1)	7		Breast(1374;0.000659)|Lung SC(1967;0.0262)|Prostate(1639;0.157)		Colorectal(1306;1.12e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00553)		TTGTCGATAACGCAGACTCTC	0.368			T	NTRK1	papillary thyroid								8	108					0	0	0.004482	0	0	
TPR	7175	broad.mit.edu	37	1	186313197	186313197	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:186313197C>T	uc001grv.2	-	26	3740	c.3443G>A	c.(3442-3444)CGC>CAC	p.R1148H		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	1148	Potential.				carbohydrate metabolic process|glucose transport|mitotic cell cycle spindle assembly checkpoint|mRNA transport|protein import into nucleus|regulation of glucose transport|seryl-tRNA aminoacylation|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytoplasm|nuclear membrane|nuclear pore|nucleoplasm	ATP binding|protein binding|serine-tRNA ligase activity			ovary(2)|lung(2)|urinary_tract(1)|central_nervous_system(1)|skin(1)	7		Breast(1374;0.000659)|Lung SC(1967;0.0262)|Prostate(1639;0.157)		Colorectal(1306;1.12e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00553)		ATCTTCACAGCGACATACACA	0.348			T	NTRK1	papillary thyroid								12	31					0	0	0.001855	0	0	
PTGS2	5743	broad.mit.edu	37	1	186647441	186647441	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:186647441C>A	uc001gsb.2	-	4	546	c.409G>T	c.(409-411)GCC>TCC	p.A137S	PTGS2_uc009wyo.2_Missense_Mutation_p.E20D	NM_000963	NP_000954	P35354	PGH2_HUMAN	prostaglandin-endoperoxide synthase 2 precursor	137					cellular component movement|cyclooxygenase pathway|hormone biosynthetic process|positive regulation of brown fat cell differentiation|positive regulation of cell migration involved in sprouting angiogenesis|positive regulation of fever generation|positive regulation of fibroblast growth factor production|positive regulation of nitric oxide biosynthetic process|positive regulation of platelet-derived growth factor production|positive regulation of prostaglandin biosynthetic process|positive regulation of transforming growth factor-beta production|positive regulation vascular endothelial growth factor production|regulation of blood pressure|response to oxidative stress|xenobiotic metabolic process	endoplasmic reticulum lumen|endoplasmic reticulum membrane|microsome|neuron projection|nucleus	enzyme binding|heme binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peroxidase activity|prostaglandin-endoperoxide synthase activity			ovary(1)|central_nervous_system(1)	2					Acetaminophen(DB00316)|Aspirin(DB00945)|Balsalazide(DB01014)|Bromfenac(DB00963)|Carprofen(DB00821)|Celecoxib(DB00482)|Ciclopirox(DB01188)|Diclofenac(DB00586)|Diflunisal(DB00861)|Epoprostenol(DB01240)|Etodolac(DB00749)|Etoricoxib(DB01628)|Fenoprofen(DB00573)|Flurbiprofen(DB00712)|gamma-Homolinolenic acid(DB00154)|Ginseng(DB01404)|Ibuprofen(DB01050)|Icosapent(DB00159)|Indomethacin(DB00328)|Ketoprofen(DB01009)|Ketorolac(DB00465)|Lenalidomide(DB00480)|Lumiracoxib(DB01283)|Meclofenamic acid(DB00939)|Mefenamic acid(DB00784)|Meloxicam(DB00814)|Mesalazine(DB00244)|Nabumetone(DB00461)|Naproxen(DB00788)|Oxaprozin(DB00991)|Phenylbutazone(DB00812)|Rofecoxib(DB00533)|Salicyclic acid(DB00936)|Salsalate(DB01399)|Sulindac(DB00605)|Suprofen(DB00870)|Tenoxicam(DB00469)|Thalidomide(DB01041)|Tiaprofenic acid(DB01600)|Tolmetin(DB00500)|Valdecoxib(DB00580)	GGAGGAAGGGCTCTAGTATAA	0.448													8	64					0.000157383	0.0001649	0.003080	1	0	
FAM5C	339479	broad.mit.edu	37	1	190067862	190067862	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:190067862C>T	uc001gse.1	-	8	1819	c.1587G>A	c.(1585-1587)TGG>TGA	p.W529*	FAM5C_uc010pot.1_Nonsense_Mutation_p.W427*	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	529						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					TCCGCTTACGCCAGGAGGGAT	0.423													6	118					0	0	0.003080	0	0	
B3GALT2	8707	broad.mit.edu	37	1	193149563	193149563	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:193149563C>T	uc001gtc.3	-	2	1845	c.1130G>A	c.(1129-1131)AGC>AAC	p.S377N	CDC73_uc001gtb.2_Intron	NM_003783	NP_003774	O43825	B3GT2_HUMAN	UDP-Gal:betaGlcNAc beta	377	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			ovary(1)	1						AATTAGGTGGCTGTATTTACA	0.433													7	85					0	0	0.006214	0	0	
CFHR1	3078	broad.mit.edu	37	1	196801062	196801062	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:196801062G>A	uc001gtn.2	+	6	1040	c.926G>A	c.(925-927)CGT>CAT	p.R309H	CFHR1_uc001gtm.2_Missense_Mutation_p.R213H	NM_002113	NP_002104	Q03591	FHR1_HUMAN	complement factor H-related 1 precursor	309	Sushi 5.				complement activation	extracellular space					0						CTTTCATCACGTTCTCACACA	0.383													6	60					0	0	0.001168	0	0	
CRB1	23418	broad.mit.edu	37	1	197390881	197390881	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:197390881C>A	uc001gtz.2	+	6	2058	c.1923C>A	c.(1921-1923)GGC>GGA	p.G641G	CRB1_uc010poz.1_Silent_p.G572G|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Silent_p.G529G|CRB1_uc010ppb.1_Silent_p.G641G|CRB1_uc010ppc.1_RNA|CRB1_uc010ppd.1_Silent_p.G122G|CRB1_uc001gub.1_Silent_p.G290G	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	641	Extracellular (Potential).|Laminin G-like 1.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						CGTTTGTAGGCTGTCTCCAAG	0.428													12	123					3.27435e-08	3.49742e-08	0.002450	1	0	
LHX9	56956	broad.mit.edu	37	1	197889133	197889133	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:197889133C>T	uc001guk.1	+	2	643	c.206C>T	c.(205-207)GCC>GTC	p.A69V	LHX9_uc001gui.1_Missense_Mutation_p.A60V|LHX9_uc001guj.1_Missense_Mutation_p.A75V	NM_020204	NP_064589	Q9NQ69	LHX9_HUMAN	LIM homeobox 9 isoform 1	69	LIM zinc-binding 1.				motor axon guidance|negative regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1						GAGAAGCCCGCCCTGTGCGCC	0.642													26	47					0	0	0.002096	0	0	
PTPRC	5788	broad.mit.edu	37	1	198685904	198685904	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:198685904A>C	uc001gur.1	+	13	1559	c.1379A>C	c.(1378-1380)TAC>TCC	p.Y460S	PTPRC_uc001gus.1_Missense_Mutation_p.Y412S|PTPRC_uc001gut.1_Missense_Mutation_p.Y299S|PTPRC_uc009wzf.1_Missense_Mutation_p.Y348S|PTPRC_uc010ppg.1_Missense_Mutation_p.Y396S	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	460	Extracellular (Potential).|Fibronectin type-III 1.				axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12						TTACATGCCTACATCATTGCA	0.313													5	45					0	0	0.000602	0	0	
PTPRC	5788	broad.mit.edu	37	1	198687371	198687371	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:198687371G>A	uc001gur.1	+	14	1773	c.1593G>A	c.(1591-1593)TCG>TCA	p.S531S	PTPRC_uc001gus.1_Silent_p.S483S|PTPRC_uc001gut.1_Silent_p.S370S|PTPRC_uc009wzf.1_Silent_p.S419S|PTPRC_uc010ppg.1_Silent_p.S467S	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	531	Extracellular (Potential).|Fibronectin type-III 2.				axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12						GAAATGAGTCGCATAAGAATT	0.403													16	26					0	0	0.004007	0	0	
PTPRC	5788	broad.mit.edu	37	1	198703517	198703517	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:198703517T>C	uc001gur.1	+	22	2414	c.2234T>C	c.(2233-2235)GTT>GCT	p.V745A	PTPRC_uc001gus.1_Missense_Mutation_p.V697A|PTPRC_uc001gut.1_Missense_Mutation_p.V584A|PTPRC_uc010ppg.1_Missense_Mutation_p.V681A	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	745	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 1.				axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12						AAAGCCACAGTTATTGTCATG	0.408													8	354					0	0	0.006214	0	0	
CACNA1S	779	broad.mit.edu	37	1	201022696	201022696	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:201022696C>T	uc001gvv.2	-	30	3913	c.3686G>A	c.(3685-3687)CGC>CAC	p.R1229H		NM_000069	NP_000060	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type,	1229	IV.|Extracellular (Potential).				axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)|skin(1)	5					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	GCTGGAGATGCGGGCACTCTC	0.642													7	29					0	0	0.006214	0	0	
PKP1	5317	broad.mit.edu	37	1	201252935	201252935	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:201252935G>A	uc001gwd.2	+	1	356	c.105G>A	c.(103-105)ACG>ACA	p.T35T	PKP1_uc001gwe.2_Silent_p.T35T|PKP1_uc009wzm.2_5'UTR	NM_000299	NP_000290	Q13835	PKP1_HUMAN	plakophilin 1 isoform 1b	35					cell adhesion|cellular component disassembly involved in apoptosis|multicellular organismal development	desmosome|intermediate filament|nucleus	intermediate filament binding|signal transducer activity|structural constituent of epidermis			ovary(2)	2						AAACAGGCACGTCTGGCAGGC	0.587													10	29					0	0	0.000978	0	0	
CSRP1	1465	broad.mit.edu	37	1	201454427	201454427	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:201454427G>A	uc001gws.2	-	5	680	c.489C>T	c.(487-489)GGC>GGT	p.G163G	CSRP1_uc001gwr.1_RNA|CSRP1_uc010ppr.1_Silent_p.G157G	NM_004078	NP_004069	P21291	CSRP1_HUMAN	cysteine and glycine-rich protein 1 isoform 1	163	LIM zinc-binding 2.					nucleus	zinc ion binding			ovary(1)	1						AGTAAATCTCGCCATCCTTGT	0.507													7	108					0	0	0.001984	0	0	
NAV1	89796	broad.mit.edu	37	1	201751650	201751650	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:201751650C>T	uc001gwu.2	+	6	2357	c.2010C>T	c.(2008-2010)TAC>TAT	p.Y670Y	NAV1_uc001gwv.1_Silent_p.Y178Y|NAV1_uc001gww.1_Silent_p.Y279Y|NAV1_uc001gwx.2_Silent_p.Y279Y|NAV1_uc001gwy.1_Silent_p.Y51Y	NM_020443	NP_065176	Q8NEY1	NAV1_HUMAN	neuron navigator 1	670					cell differentiation|nervous system development	cytoplasm|microtubule	nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(3)|ovary(1)	4						ACATCCAGTACCGCAGCCTGC	0.597													7	28					0	0	0.002450	0	0	
NAV1	89796	broad.mit.edu	37	1	201763655	201763655	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:201763655C>T	uc001gwu.2	+	15	3814	c.3467C>T	c.(3466-3468)GCC>GTC	p.A1156V	NAV1_uc001gwv.1_Missense_Mutation_p.A681V|NAV1_uc001gww.1_Missense_Mutation_p.A757V|NAV1_uc001gwx.2_Missense_Mutation_p.A765V|NAV1_uc001gwy.1_Missense_Mutation_p.A529V	NM_020443	NP_065176	Q8NEY1	NAV1_HUMAN	neuron navigator 1	1156	Potential.				cell differentiation|nervous system development	cytoplasm|microtubule	nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(3)|ovary(1)	4						AACTCTGAGGCCCAGGCAGTC	0.443													6	98					0	0	0.001168	0	0	
LGR6	59352	broad.mit.edu	37	1	202270002	202270002	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:202270002G>A	uc001gxu.2	+	8	811	c.811G>A	c.(811-813)GCC>ACC	p.A271T	LGR6_uc001gxv.2_Missense_Mutation_p.A219T|LGR6_uc009xab.2_RNA|LGR6_uc001gxw.2_Missense_Mutation_p.A132T|LGR6_uc009xac.1_RNA	NM_001017403	NP_001017403	Q9HBX8	LGR6_HUMAN	leucine-rich repeat-containing G protein-coupled	271	LRR 8.|Extracellular (Potential).					integral to membrane|plasma membrane	protein-hormone receptor activity			large_intestine(4)|ovary(3)|skin(2)|pancreas(1)	10						CAACATCAAGGCCATCCCAGA	0.502													60	158					0	0	0.003610	0	0	
PPP1R12B	4660	broad.mit.edu	37	1	202418206	202418206	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:202418206G>A	uc001gya.1	+	13	1901	c.1757G>A	c.(1756-1758)CGC>CAC	p.R586H	PPP1R12B_uc001gxz.1_Missense_Mutation_p.R586H	NM_002481	NP_002472	O60237	MYPT2_HUMAN	protein phosphatase 1, regulatory (inhibitor)	586					regulation of muscle contraction|signal transduction	cytoplasm	enzyme activator activity			ovary(3)	3			BRCA - Breast invasive adenocarcinoma(75;0.166)			ATCACCAATCGCCCTCTTCCT	0.502													5	58					0	0	0.001984	0	0	
SYT2	127833	broad.mit.edu	37	1	202573729	202573729	+	Missense_Mutation	SNP	C	T	T	rs147177966		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:202573729C>T	uc001gye.2	-	3	392	c.199G>A	c.(199-201)GCC>ACC	p.A67T	SYT2_uc010pqb.1_Missense_Mutation_p.A67T|SYT2_uc009xaf.2_Intron	NM_001136504	NP_001129976	Q8N9I0	SYT2_HUMAN	synaptotagmin II	67	Helical; (Potential).				neurotransmitter secretion	cell junction|chromaffin granule membrane|endocytic vesicle membrane|integral to membrane|synaptic vesicle membrane	protein binding|transporter activity			ovary(2)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(75;0.169)		Botulinum Toxin Type B(DB00042)	ACAGCAATGGCGATCAGTGCC	0.502													5	14					0	0	0.003080	0	0	
KDM5B	10765	broad.mit.edu	37	1	202704712	202704712	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:202704712G>A	uc001gyf.2	-	22	3384	c.3268C>T	c.(3268-3270)CTG>TTG	p.L1090L	KDM5B_uc009xag.2_Silent_p.L1126L|KDM5B_uc001gyg.1_Silent_p.L932L	NM_006618	NP_006609	Q9UGL1	KDM5B_HUMAN	jumonji, AT rich interactive domain 1B	1090					negative regulation of transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-trimethyl-K4 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(2)|breast(2)|urinary_tract(1)	5						CGAGGACACAGCACCTAATGT	0.383													31	63					0	0	0.009535	0	0	
KDM5B	10765	broad.mit.edu	37	1	202746175	202746175	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:202746175C>T	uc001gyf.2	-	2	368	c.252G>A	c.(250-252)ACG>ACA	p.T84T	KDM5B_uc009xag.2_Silent_p.T84T|KDM5B_uc001gyg.1_5'UTR	NM_006618	NP_006609	Q9UGL1	KDM5B_HUMAN	jumonji, AT rich interactive domain 1B	84					negative regulation of transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-trimethyl-K4 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(2)|breast(2)|urinary_tract(1)	5						GGATACGTGGCGTAAAATGAA	0.378													25	104					0	0	0.006320	0	0	
LOC148709	148709	broad.mit.edu	37	1	202842641	202842641	+	RNA	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:202842641G>A	uc001gyk.1	+	3		c.593G>A				NR_002929				Homo sapiens cDNA FLJ31247 fis, clone KIDNE2005296, weakly similar to ACTIN, CYTOPLASMIC 1.												0						GTGGACCACCGCATCATCACC	0.587													5	53					0	0	0.001168	0	0	
KLHL12	59349	broad.mit.edu	37	1	202863757	202863757	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:202863757G>A	uc001gyo.1	-	9	1456	c.1256C>T	c.(1255-1257)GCC>GTC	p.A419V	KLHL12_uc001gym.1_Missense_Mutation_p.A152V|KLHL12_uc001gyn.1_Missense_Mutation_p.A269V|KLHL12_uc010pqc.1_Missense_Mutation_p.A457V|KLHL12_uc009xah.1_Missense_Mutation_p.A318V	NM_021633	NP_067646	Q53G59	KLH12_HUMAN	kelch-like 12	419	Kelch 3.|Interaction with DVL3.				Wnt receptor signaling pathway		protein binding				0			BRCA - Breast invasive adenocarcinoma(75;0.166)			TACGAGTCCGGCACCTTCCCG	0.542													10	111					0	0	0.000978	0	0	
ADIPOR1	51094	broad.mit.edu	37	1	202920110	202920110	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:202920110A>G	uc001gyq.3	-	2	356	c.89T>C	c.(88-90)CTG>CCG	p.L30P	ADIPOR1_uc010pqd.1_5'Flank|ADIPOR1_uc001gyr.3_5'UTR|ADIPOR1_uc001gys.3_Missense_Mutation_p.L30P	NM_015999	NP_057083	Q96A54	ADR1_HUMAN	adiponectin receptor 1	30	Cytoplasmic (Potential).				fatty acid oxidation|hormone-mediated signaling pathway	integral to membrane|plasma membrane	hormone binding|protein kinase binding|receptor activity				0			BRCA - Breast invasive adenocarcinoma(75;0.141)			CAGGGGTCCCAGTTCAGCCAG	0.547													19	75					0	0	0.010504	0	0	
C1orf157	284573	broad.mit.edu	37	1	204006616	204006616	+	RNA	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:204006616G>A	uc001haj.2	-	3		c.404C>T			C1orf157_uc001hak.2_RNA|C1orf157_uc010pqo.1_RNA	NR_027902				Homo sapiens cDNA FLJ40343 fis, clone TESTI2032774.												0	all_cancers(21;0.083)|Breast(84;0.193)|all_epithelial(62;0.21)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|BRCA - Breast invasive adenocarcinoma(75;0.0754)|Kidney(21;0.0934)|Epithelial(59;0.233)			GTCAGGGGAGGCAACGTTGTC	0.607													4	54					0	0	0.000602	0	0	
PLEKHA6	22874	broad.mit.edu	37	1	204226501	204226501	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:204226501G>A	uc001hau.2	-	9	1821	c.1504C>T	c.(1504-1506)CGA>TGA	p.R502*	PLEKHA6_uc009xaw.1_Nonsense_Mutation_p.R126*|PLEKHA6_uc009xax.1_Nonsense_Mutation_p.R126*|PLEKHA6_uc009xay.1_Nonsense_Mutation_p.R126*|PLEKHA6_uc009xaz.1_Nonsense_Mutation_p.R126*|PLEKHA6_uc009xba.1_Nonsense_Mutation_p.R126*|PLEKHA6_uc009xbb.1_Nonsense_Mutation_p.R126*|PLEKHA6_uc009xbc.1_Nonsense_Mutation_p.R126*	NM_014935	NP_055750	Q9Y2H5	PKHA6_HUMAN	phosphoinositol 3-phosphate-binding protein-3	502										ovary(3)|pancreas(1)	4	all_cancers(21;0.0222)|Breast(84;0.179)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|BRCA - Breast invasive adenocarcinoma(75;0.0833)|Kidney(21;0.0934)|Epithelial(59;0.229)			CTGATGGATCGCCTCATCACA	0.592													3	2					0	0	0.004672	0	0	
SLC45A3	85414	broad.mit.edu	37	1	205632060	205632060	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:205632060T>C	uc001hda.1	-	3	1198	c.859A>G	c.(859-861)ACC>GCC	p.T287A	SLC45A3_uc010prn.1_5'Flank|SLC45A3_uc010pro.1_Missense_Mutation_p.T121A|SLC45A3_uc010prp.1_Intron|ELK4_uc010prq.1_Intron	NM_033102	NP_149093	Q96JT2	S45A3_HUMAN	prostein	287	Helical; Name=7; (Potential).				transmembrane transport	integral to membrane			SLC45A3/BRAF(2)	ovary(2)|prostate(2)	4	Breast(84;0.07)		BRCA - Breast invasive adenocarcinoma(75;0.0194)			AGCGTGAAGGTCATGAGTGCC	0.667			T	ETV1|ETV5|ELK4|ERG	prostate 								4	36					0	0	0.001168	0	0	
PM20D1	148811	broad.mit.edu	37	1	205814498	205814498	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:205814498G>A	uc001hdj.2	-	3	489	c.444C>T	c.(442-444)GGC>GGT	p.G148G	PM20D1_uc009xbr.2_RNA	NM_152491	NP_689704	Q6GTS8	P20D1_HUMAN	peptidase M20 domain containing 1 precursor	148						extracellular region	metal ion binding|peptidase activity			skin(1)	1	Breast(84;0.201)		BRCA - Breast invasive adenocarcinoma(75;0.0252)			CATAGATGATGCCATCACGCT	0.567													23	67					0	0	0.004656	0	0	
SRGAP2	23380	broad.mit.edu	37	1	206626563	206626563	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:206626563G>A	uc001hdy.2	+	17	2269	c.1936G>A	c.(1936-1938)GCC>ACC	p.A646T	SRGAP2_uc010prt.1_Missense_Mutation_p.A569T|SRGAP2_uc001hdx.2_Missense_Mutation_p.A646T|SRGAP2_uc010pru.1_Missense_Mutation_p.A569T|SRGAP2_uc010prv.1_Missense_Mutation_p.A570T	NM_015326	NP_056141	O75044	FNBP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 2	733	SH3.				axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding				0	Breast(84;0.137)					GCCCATCGAGGCCATTGCCAA	0.532													3	11					0	0	0.009096	0	0	
FAIM3	9214	broad.mit.edu	37	1	207087292	207087292	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:207087292A>G	uc001hey.2	-	2	364	c.185T>C	c.(184-186)GTA>GCA	p.V62A	FAIM3_uc010prz.1_Intron|FAIM3_uc010psa.1_Silent_p.G5G|FAIM3_uc010psb.1_Missense_Mutation_p.V62A	NM_005449	NP_005440	O60667	FAIM3_HUMAN	Fas apoptotic inhibitory molecule 3 isoform a	62	Ig-like.|Extracellular (Potential).				anti-apoptosis|cellular defense response	integral to membrane				central_nervous_system(1)	1	Breast(84;0.201)					GGTGGTGGATACCACGGTACC	0.502													4	150					0	0	0.000602	0	0	
CD34	947	broad.mit.edu	37	1	208061099	208061099	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:208061099G>A	uc001hgw.1	-	8	1400	c.1142C>T	c.(1141-1143)GCT>GTT	p.A381V	CD34_uc001hgv.1_Missense_Mutation_p.A223V|CD34_uc001hgx.1_3'UTR|CD34_uc010psj.1_Missense_Mutation_p.A246V	NM_001025109	NP_001020280	P28906	CD34_HUMAN	CD34 antigen isoform a	381	Cytoplasmic (Potential).				cell-cell adhesion|leukocyte migration|regulation of immune response	integral to membrane	carbohydrate binding			ovary(1)	1						TTCGGTATCAGCCACCACGTG	0.617													9	36					0	0	0.008871	0	0	
PLXNA2	5362	broad.mit.edu	37	1	208212226	208212226	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:208212226G>A	uc001hgz.2	-	25	5362	c.4604C>T	c.(4603-4605)GCC>GTC	p.A1535V		NM_025179	NP_079455	O75051	PLXA2_HUMAN	plexin A2 precursor	1535	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.199)		CTTATACACGGCATCAAGAAT	0.527													27	71					0	0	0.005443	0	0	
HHAT	55733	broad.mit.edu	37	1	210591562	210591562	+	Missense_Mutation	SNP	G	A	A	rs148639278	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:210591562G>A	uc009xcx.2	+	7	915	c.749G>A	c.(748-750)CGC>CAC	p.R250H	HHAT_uc010psq.1_Missense_Mutation_p.R113H|HHAT_uc001hhz.3_Missense_Mutation_p.R250H|HHAT_uc010psr.1_Missense_Mutation_p.R251H|HHAT_uc010pss.1_Missense_Mutation_p.R205H|HHAT_uc009xcy.2_Missense_Mutation_p.R185H|HHAT_uc010pst.1_Missense_Mutation_p.R187H|HHAT_uc010psu.1_Missense_Mutation_p.R185H	NM_001122834	NP_001116306	Q5VTY9	HHAT_HUMAN	hedgehog acyltransferase	250					multicellular organismal development	endoplasmic reticulum membrane|integral to membrane	GTP binding			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0136)|all cancers(67;0.161)|KIRC - Kidney renal clear cell carcinoma(1967;0.215)		GGGCTGGGCCGCCTTCTTTGC	0.582													7	28					0	0	0.004482	0	0	
KCNH1	3756	broad.mit.edu	37	1	210971031	210971031	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:210971031C>A	uc001hib.2	-	9	1904	c.1734G>T	c.(1732-1734)GAG>GAT	p.E578D	KCNH1_uc001hic.2_Missense_Mutation_p.E551D	NM_172362	NP_758872	O95259	KCNH1_HUMAN	potassium voltage-gated channel, subfamily H,	578	Cytoplasmic (Potential).				myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)		AGGCCGGGTGCTCCTTGAACA	0.602													4	28					4.096e-09	4.38941e-09	0.001168	1	0	
RCOR3	55758	broad.mit.edu	37	1	211451507	211451507	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:211451507A>G	uc001hig.2	+	5	560	c.391A>G	c.(391-393)AAA>GAA	p.K131E	RCOR3_uc010psv.1_RNA|RCOR3_uc001hie.2_Missense_Mutation_p.K189E|RCOR3_uc010psw.1_Missense_Mutation_p.K189E|RCOR3_uc001hif.2_Missense_Mutation_p.K189E	NM_018254	NP_060724	Q9P2K3	RCOR3_HUMAN	REST corepressor 3 isoform d	131	SANT 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.00961)|all cancers(67;0.0999)|Epithelial(68;0.171)		CTATTCTTGGAAAAAAACTCG	0.338													24	56					0	0	0.007291	0	0	
NEK2	4751	broad.mit.edu	37	1	211842455	211842455	+	Nonsense_Mutation	SNP	G	A	A	rs140995957		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:211842455G>A	uc001hir.1	-	6	1131	c.985C>T	c.(985-987)CAG>TAG	p.Q329*	NEK2_uc001hiq.1_Nonsense_Mutation_p.Q329*|NEK2_uc001his.3_Nonsense_Mutation_p.Q329*|NEK2_uc001hit.1_RNA	NM_002497	NP_002488	P51955	NEK2_HUMAN	NIMA-related kinase 2	329	Leucine-zipper.|Necessary for interaction with MAD1L1.|Potential.|Interaction with PCNT.				cell division|centrosome separation|G2/M transition of mitotic cell cycle|meiosis|protein autophosphorylation|regulation of mitosis	centrosome|condensed chromosome kinetochore|cytosol|nucleolus	ATP binding|metal ion binding|protein binding|protein phosphatase binding|protein serine/threonine kinase activity			breast(2)|stomach(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.00203)|all cancers(67;0.0339)|Epithelial(68;0.0546)		TCAGACTTACGCTCCAATCTT	0.423													70	225					0	0	0.003610	0	0	
DTL	51514	broad.mit.edu	37	1	212273912	212273912	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:212273912C>T	uc009xdc.2	+	14	1894	c.1580C>T	c.(1579-1581)CCG>CTG	p.P527L	DTL_uc010ptb.1_Missense_Mutation_p.P485L|DTL_uc001hiz.3_Missense_Mutation_p.P256L	NM_016448	NP_057532	Q9NZJ0	DTL_HUMAN	denticleless homolog	527					DNA replication|G2/M transition DNA damage checkpoint|protein monoubiquitination|protein polyubiquitination|response to UV|translesion synthesis|ubiquitin-dependent protein catabolic process	centrosome|Cul4A-RING ubiquitin ligase complex|Cul4B-RING ubiquitin ligase complex|nuclear membrane	protein binding				0				OV - Ovarian serous cystadenocarcinoma(81;0.00796)|all cancers(67;0.0385)|Epithelial(68;0.102)		ATCATGTCTCCGAGAAAAGCC	0.493													25	80					0	0	0.005443	0	0	
RPS6KC1	26750	broad.mit.edu	37	1	213414415	213414415	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:213414415G>T	uc010ptr.1	+	11	1755	c.1596G>T	c.(1594-1596)GAG>GAT	p.E532D	RPS6KC1_uc001hkd.2_Missense_Mutation_p.E520D|RPS6KC1_uc010pts.1_Missense_Mutation_p.E320D|RPS6KC1_uc010ptt.1_Missense_Mutation_p.E320D|RPS6KC1_uc010ptu.1_Missense_Mutation_p.E351D|RPS6KC1_uc010ptv.1_Missense_Mutation_p.E67D|RPS6KC1_uc001hke.2_Missense_Mutation_p.E351D	NM_012424	NP_036556	Q96S38	KS6C1_HUMAN	ribosomal protein S6 kinase, 52kDa, polypeptide	532					cell communication|signal transduction	early endosome|membrane	ATP binding|phosphatidylinositol binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(3)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(81;0.00705)|all cancers(67;0.016)|GBM - Glioblastoma multiforme(131;0.0663)|Epithelial(68;0.145)		TGAATGAGGAGCCCTTCATGA	0.418													14	46					4.36969e-10	4.6962e-10	0.001855	1	0	
PROX1	5629	broad.mit.edu	37	1	214171100	214171100	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:214171100C>T	uc001hkh.2	+	2	1494	c.1222C>T	c.(1222-1224)CGC>TGC	p.R408C	PROX1_uc001hkg.1_Missense_Mutation_p.R408C	NM_002763	NP_002754	Q92786	PROX1_HUMAN	prospero homeobox 1	408					aorta smooth muscle tissue morphogenesis|atrial cardiac muscle tissue morphogenesis|brain development|dorsal spinal cord development|embryonic retina morphogenesis in camera-type eye|endocardium formation|hepatocyte differentiation|kidney development|lens fiber cell morphogenesis|lung development|lymphangiogenesis|negative regulation of bile acid biosynthetic process|negative regulation of cell proliferation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of viral genome replication|neural tube development|olfactory placode formation|optic placode formation involved in camera-type eye formation|otic placode formation|pancreas development|positive regulation of cyclin-dependent protein kinase activity|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of heart growth|positive regulation of S phase of mitotic cell cycle|positive regulation of sarcomere organization|positive regulation of transcription, DNA-dependent|regulation of transcription involved in lymphatic endothelial cell fate commitment|skeletal muscle thin filament assembly|venous blood vessel morphogenesis|ventricular cardiac muscle tissue morphogenesis|ventricular cardiac myofibril development|ventricular septum morphogenesis	cytoplasm|nucleus	DBD domain binding|LBD domain binding|ligand-dependent nuclear receptor binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription corepressor activity|transcription regulatory region DNA binding			ovary(3)|lung(1)|central_nervous_system(1)|skin(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0179)|all cancers(67;0.0488)|GBM - Glioblastoma multiforme(131;0.188)|Epithelial(68;0.219)		CGCCAACCAGCGCCTGCAGTG	0.587													23	64					0	0	0.007291	0	0	
PROX1	5629	broad.mit.edu	37	1	214171117	214171117	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:214171117C>T	uc001hkh.2	+	2	1511	c.1239C>T	c.(1237-1239)GGC>GGT	p.G413G	PROX1_uc001hkg.1_Silent_p.G413G	NM_002763	NP_002754	Q92786	PROX1_HUMAN	prospero homeobox 1	413					aorta smooth muscle tissue morphogenesis|atrial cardiac muscle tissue morphogenesis|brain development|dorsal spinal cord development|embryonic retina morphogenesis in camera-type eye|endocardium formation|hepatocyte differentiation|kidney development|lens fiber cell morphogenesis|lung development|lymphangiogenesis|negative regulation of bile acid biosynthetic process|negative regulation of cell proliferation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of viral genome replication|neural tube development|olfactory placode formation|optic placode formation involved in camera-type eye formation|otic placode formation|pancreas development|positive regulation of cyclin-dependent protein kinase activity|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of heart growth|positive regulation of S phase of mitotic cell cycle|positive regulation of sarcomere organization|positive regulation of transcription, DNA-dependent|regulation of transcription involved in lymphatic endothelial cell fate commitment|skeletal muscle thin filament assembly|venous blood vessel morphogenesis|ventricular cardiac muscle tissue morphogenesis|ventricular cardiac myofibril development|ventricular septum morphogenesis	cytoplasm|nucleus	DBD domain binding|LBD domain binding|ligand-dependent nuclear receptor binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription corepressor activity|transcription regulatory region DNA binding			ovary(3)|lung(1)|central_nervous_system(1)|skin(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0179)|all cancers(67;0.0488)|GBM - Glioblastoma multiforme(131;0.188)|Epithelial(68;0.219)		AGTGCTTTGGCGACGTCATCA	0.562													8	94					0	0	0.006214	0	0	
KCTD3	51133	broad.mit.edu	37	1	215793881	215793881	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:215793881C>T	uc001hks.2	+	18	2663	c.2369C>T	c.(2368-2370)GCG>GTG	p.A790V	KCTD3_uc001hkt.2_Missense_Mutation_p.A788V|KCTD3_uc010pub.1_Missense_Mutation_p.A688V|KCTD3_uc009xdn.2_Missense_Mutation_p.A514V	NM_016121	NP_057205	Q9Y597	KCTD3_HUMAN	potassium channel tetramerisation domain	790						voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			ovary(3)	3				all cancers(67;0.0164)|OV - Ovarian serous cystadenocarcinoma(81;0.019)|GBM - Glioblastoma multiforme(131;0.0862)|Epithelial(68;0.13)		CCTGGTACTGCGTCCCCATCT	0.463													48	86					0	0	0.003610	0	0	
USH2A	7399	broad.mit.edu	37	1	216040396	216040396	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:216040396G>A	uc001hku.1	-	44	9185	c.8798C>T	c.(8797-8799)GCG>GTG	p.A2933V		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2933	Fibronectin type-III 16.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		AAGGACACTCGCAGTGAGATT	0.453										HNSCC(13;0.011)			15	49					0	0	0.008871	0	0	
USH2A	7399	broad.mit.edu	37	1	216595645	216595645	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:216595645A>C	uc001hku.1	-	2	421	c.34T>G	c.(34-36)TTC>GTC	p.F12V	USH2A_uc001hkv.2_Missense_Mutation_p.F12V	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	12					maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TGAAACAAGAAGCCAGAGCCC	0.423										HNSCC(13;0.011)			7	82					0	0	0.003080	0	0	
TGFB2	7042	broad.mit.edu	37	1	218607501	218607501	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:218607501C>T	uc001hlm.2	+	3	1241	c.588C>T	c.(586-588)GGC>GGT	p.G196G	TGFB2_uc001hln.2_Silent_p.G224G|TGFB2_uc010pue.1_RNA|TGFB2_uc001hlo.2_RNA	NM_003238	NP_003229	P61812	TGFB2_HUMAN	transforming growth factor, beta 2 isoform 2	196					activation of protein kinase activity|angiogenesis|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cardioblast differentiation|catagen|cell cycle arrest|cell death|cell growth|cell-cell junction organization|cell-cell signaling|collagen fibril organization|dopamine biosynthetic process|embryonic digestive tract development|eye development|glial cell migration|hair follicle morphogenesis|hemopoiesis|menstrual cycle phase|negative regulation of alkaline phosphatase activity|negative regulation of cell growth|negative regulation of epithelial cell proliferation|negative regulation of immune response|negative regulation of macrophage cytokine production|neuron development|neutrophil chemotaxis|odontogenesis|pathway-restricted SMAD protein phosphorylation|platelet activation|platelet degranulation|positive regulation of cardioblast differentiation|positive regulation of catagen|positive regulation of cell adhesion mediated by integrin|positive regulation of cell cycle|positive regulation of cell division|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of epithelial cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of heart contraction|positive regulation of immune response|positive regulation of integrin biosynthetic process|positive regulation of neuron apoptosis|positive regulation of ossification|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein secretion|positive regulation of stress-activated MAPK cascade|regulation of transforming growth factor-beta2 production|response to hypoxia|response to progesterone stimulus|salivary gland morphogenesis|SMAD protein import into nucleus|somatic stem cell division|transforming growth factor beta receptor signaling pathway	axon|extracellular matrix|extracellular space|neuronal cell body|platelet alpha granule lumen	beta-amyloid binding|cytokine activity|growth factor activity|protein heterodimerization activity|protein homodimerization activity|receptor signaling protein serine/threonine kinase activity|type II transforming growth factor beta receptor binding				0				all cancers(67;0.0459)|OV - Ovarian serous cystadenocarcinoma(81;0.049)|GBM - Glioblastoma multiforme(131;0.0776)		GAGCAGAAGGCGAATGGCTCT	0.453													81	76					0	0	0.003610	0	0	
RAB3GAP2	25782	broad.mit.edu	37	1	220345285	220345285	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:220345285C>T	uc010puk.1	-	23	2687	c.2523G>A	c.(2521-2523)GCG>GCA	p.A841A	RAB3GAP2_uc001hmf.2_RNA|RAB3GAP2_uc001hmg.2_Silent_p.A421A	NM_012414	NP_036546	Q9H2M9	RBGPR_HUMAN	rab3 GTPase-activating protein, non-catalytic	841					intracellular protein transport	cytoplasm|soluble fraction	GTPase activator activity|protein heterodimerization activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(131;0.0443)		GCCCAACATGCGCAGACAACA	0.488													20	69					0	0	0.002780	0	0	
MOSC1	64757	broad.mit.edu	37	1	220970031	220970031	+	Missense_Mutation	SNP	G	A	A	rs140778482	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:220970031G>A	uc001hms.2	+	3	744	c.496G>A	c.(496-498)GCC>ACC	p.A166T	MOSC1_uc001hmt.2_Missense_Mutation_p.A166T	NM_022746	NP_073583	Q5VT66	MOSC1_HUMAN	MOCO sulphurase C-terminal domain containing 1	166							molybdenum ion binding|oxidoreductase activity|pyridoxal phosphate binding				0				GBM - Glioblastoma multiforme(131;0.0358)		CGAGGCCACCGCCCAGTGGAT	0.582													4	22					0	0	0.001168	0	0	
DUSP10	11221	broad.mit.edu	37	1	221912575	221912575	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:221912575C>T	uc001hmy.1	-	2	694	c.512G>A	c.(511-513)GGC>GAC	p.G171D	DUSP10_uc001hmx.1_5'Flank|DUSP10_uc001hmz.1_Intron	NM_007207	NP_009138	Q9Y6W6	DUS10_HUMAN	dual specificity phosphatase 10 isoform a	171	Rhodanese.				inactivation of MAPK activity|JNK cascade|negative regulation of JNK cascade|negative regulation of JUN kinase activity|negative regulation of stress-activated MAPK cascade	Golgi apparatus|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)|lung(1)	2				GBM - Glioblastoma multiforme(131;0.0103)		GATGACAGGGCCCTGACTCGG	0.517													14	38					0	0	0.002450	0	0	
HHIPL2	79802	broad.mit.edu	37	1	222696094	222696094	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:222696094C>T	uc001hnh.1	-	9	2082	c.2024G>A	c.(2023-2025)AGC>AAC	p.S675N		NM_024746	NP_079022	Q6UWX4	HIPL2_HUMAN	HHIP-like 2 precursor	675					carbohydrate metabolic process	extracellular region	oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor|quinone binding			ovary(1)	1				GBM - Glioblastoma multiforme(131;0.0185)		TGTATTCTTGCTGCTTGTAGG	0.547													8	157					0	0	0.003080	0	0	
HHIPL2	79802	broad.mit.edu	37	1	222717211	222717211	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:222717211G>A	uc001hnh.1	-	2	700	c.642C>T	c.(640-642)AAC>AAT	p.N214N		NM_024746	NP_079022	Q6UWX4	HIPL2_HUMAN	HHIP-like 2 precursor	214					carbohydrate metabolic process	extracellular region	oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor|quinone binding			ovary(1)	1				GBM - Glioblastoma multiforme(131;0.0185)		TCCTCAGCCCGTTGGCCACCT	0.617													4	22					0	0	0.000602	0	0	
MIA3	375056	broad.mit.edu	37	1	222803003	222803003	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:222803003G>A	uc001hnl.2	+	4	2450	c.2441G>A	c.(2440-2442)CGC>CAC	p.R814H	MIA3_uc009xea.1_Missense_Mutation_p.R650H	NM_198551	NP_940953	Q5JRA6	MIA3_HUMAN	melanoma inhibitory activity family, member 3	814	Extracellular (Potential).				exocytosis|negative regulation of cell adhesion|negative regulation of cell migration|positive regulation of leukocyte migration|protein transport|wound healing	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(4)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(131;0.0199)		GAAAAAGAACGCCCTCTGGCA	0.418													5	53					0	0	0.001168	0	0	
C1orf58	148362	broad.mit.edu	37	1	222898866	222898866	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:222898866C>T	uc001hnq.1	+	7	944	c.549C>T	c.(547-549)TAC>TAT	p.Y183Y	C1orf58_uc010put.1_Silent_p.Y151Y|C1orf58_uc010puu.1_Silent_p.Y183Y|C1orf58_uc010puv.1_Silent_p.Y151Y	NM_144695	NP_653296	Q5VW32	BROX_HUMAN	Bro1-domain-containing protein	183	BRO1.					membrane					0				GBM - Glioblastoma multiforme(131;0.0667)		TAGAAGCATACGTTATTCAAT	0.333													21	39					0	0	0.002299	0	0	
DISP1	84976	broad.mit.edu	37	1	223177973	223177973	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:223177973C>T	uc001hnu.1	+	8	3381	c.3234C>T	c.(3232-3234)CGC>CGT	p.R1078R		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	1078					diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		CTCTGAGTCGCGTGGGCTCTG	0.592													10	27					0	0	0.008291	0	0	
DISP1	84976	broad.mit.edu	37	1	223178672	223178672	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:223178672C>T	uc001hnu.1	+	8	4080	c.3933C>T	c.(3931-3933)GGC>GGT	p.G1311G		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	1311					diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		TCCAAAACGGCGTGGCACCTC	0.577													6	83					0	0	0.001168	0	0	
CAPN2	824	broad.mit.edu	37	1	223933116	223933116	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:223933116G>A	uc001hob.3	+	4	759	c.535G>A	c.(535-537)GCC>ACC	p.A179T	CAPN2_uc010puy.1_Missense_Mutation_p.A101T	NM_001748	NP_001739	P17655	CAN2_HUMAN	calpain 2 isoform 1	179	Calpain catalytic.				proteolysis	cytoplasm|plasma membrane				lung(3)|breast(1)|skin(1)	5				GBM - Glioblastoma multiforme(131;0.109)		GTTCTGGAGCGCCCTGCTGGA	0.562													9	38					0	0	0.001368	0	0	
EPHX1	2052	broad.mit.edu	37	1	226016576	226016576	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:226016576G>A	uc001hpk.2	+	2	226	c.146G>A	c.(145-147)CGC>CAC	p.R49H	EPHX1_uc001hpl.2_Missense_Mutation_p.R49H	NM_001136018	NP_001129490	P07099	HYEP_HUMAN	epoxide hydrolase 1	49					aromatic compound catabolic process|response to toxin	endoplasmic reticulum membrane|integral to membrane|microsome	cis-stilbene-oxide hydrolase activity|epoxide hydrolase activity			ovary(3)|lung(1)	4	Breast(184;0.197)					GACAGCATCCGCCCTTTCAAG	0.612													3	6					0	0	0.004672	0	0	
H3F3A	3020	broad.mit.edu	37	1	226253372	226253372	+	Silent	SNP	G	A	A	rs143861201		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:226253372G>A	uc001hpw.2	+	3	259	c.144G>A	c.(142-144)GCG>GCA	p.A48A	H3F3A_uc010pvl.1_Silent_p.A48A	NM_005324	NP_005315	P84243	H33_HUMAN	H3 histone, family 3B	48					blood coagulation|nucleosome assembly	nucleoplasm|nucleosome	DNA binding				0	Breast(184;0.179)			GBM - Glioblastoma multiforme(131;0.203)		GTACTGTGGCGCTCCGTGAAA	0.403													9	33					0	0	0.000978	0	0	
PARP1	142	broad.mit.edu	37	1	226576444	226576444	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:226576444G>A	uc001hqd.3	-	5	801	c.630C>T	c.(628-630)GGC>GGT	p.G210G		NM_001618	NP_001609	P09874	PARP1_HUMAN	poly (ADP-ribose) polymerase family, member 1	210					cellular response to insulin stimulus|protein ADP-ribosylation|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nuclear envelope|nucleolus|transcription factor complex	DNA binding|identical protein binding|NAD+ ADP-ribosyltransferase activity|protein N-terminus binding|transcription factor binding|zinc ion binding			lung(3)|ovary(2)|breast(2)|skin(2)|upper_aerodigestive_tract(1)	10	Breast(184;0.133)			GBM - Glioblastoma multiforme(131;0.0531)		CCACCTCATCGCCTTTTCTCT	0.428								Direct_reversal_of_damage|PARP_enzymes_that_bind_to_DNA					42	104					0	0	0.003610	0	0	
ITPKB	3707	broad.mit.edu	37	1	226923286	226923286	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:226923286C>T	uc010pvo.1	-	2	2214	c.1874G>A	c.(1873-1875)CGC>CAC	p.R625H	ITPKB_uc001hqh.2_Missense_Mutation_p.R625H	NM_002221	NP_002212	P27987	IP3KB_HUMAN	1D-myo-inositol-trisphosphate 3-kinase B	625							ATP binding|calmodulin binding|inositol trisphosphate 3-kinase activity			ovary(4)|central_nervous_system(1)	5		Prostate(94;0.0773)				GTCCAGGGTGCGCTCAGGGTC	0.557													6	77					0	0	0.001984	0	0	
OBSCN	84033	broad.mit.edu	37	1	228461716	228461716	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:228461716G>A	uc009xez.1	+	18	5427	c.5383G>A	c.(5383-5385)GCA>ACA	p.A1795T	OBSCN_uc001hsn.2_Missense_Mutation_p.A1795T	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	1795	Fibronectin type-III 2.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CCGTGTGGGCGCAGAGGGGCA	0.682													3	5					0	0	0.009096	0	0	
OBSCN	84033	broad.mit.edu	37	1	228467553	228467553	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:228467553G>A	uc009xez.1	+	28	7472	c.7428G>A	c.(7426-7428)GAG>GAA	p.E2476E	OBSCN_uc001hsn.2_Silent_p.E2476E|OBSCN_uc001hsp.1_Silent_p.E175E|OBSCN_uc001hsq.1_5'Flank	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	2476	Ig-like 24.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GGCCGTTGGAGCCCAAGACAG	0.652													3	3					0	0	0.004672	0	0	
OBSCN	84033	broad.mit.edu	37	1	228506834	228506834	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:228506834G>A	uc009xez.1	+	54	14425	c.14381G>A	c.(14380-14382)CGC>CAC	p.R4794H	OBSCN_uc001hsn.2_Missense_Mutation_p.R4794H	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	4794					apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GAGCTGGCCCGCACTGGAGAT	0.652													10	6					0	0	0.008291	0	0	
HIST3H2A	92815	broad.mit.edu	37	1	228645350	228645350	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:228645350C>T	uc001hsy.2	-	1	211	c.169G>A	c.(169-171)GAG>AAG	p.E57K	HIST3H2BB_uc001hsz.2_5'Flank	NM_033445	NP_254280	Q7L7L0	H2A3_HUMAN	histone cluster 3, H2a	57					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(1)	1		Prostate(94;0.183)				GTCAAGTACTCGAGCACCGCG	0.687													4	33					0	0	0.000602	0	0	
C1orf96	126731	broad.mit.edu	37	1	229462504	229462504	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:229462504G>A	uc001htl.3	-	3	695	c.617C>T	c.(616-618)GCG>GTG	p.A206V	C1orf96_uc009xfc.2_RNA	NM_145257	NP_660300	Q6IQ19	CA096_HUMAN	hypothetical protein LOC126731	206						centrosome					0	Breast(184;0.0858)|Ovarian(103;0.103)	Prostate(94;0.178)				AGGAGCGGACGCACAGACGTT	0.532													6	70					0	0	0.001984	0	0	
ACTA1	58	broad.mit.edu	37	1	229568586	229568586	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:229568586G>A	uc001htm.2	-	3	276	c.171C>T	c.(169-171)GGC>GGT	p.G57G		NM_001100	NP_001091	P68133	ACTS_HUMAN	actin, alpha 1, skeletal muscle	57					muscle filament sliding|skeletal muscle fiber development|skeletal muscle thin filament assembly	actin filament|cytosol|stress fiber|striated muscle thin filament	ADP binding|ATP binding|myosin binding|structural constituent of cytoskeleton				0	Breast(184;0.0858)|Ovarian(103;0.103)	Prostate(94;0.167)			Dornase Alfa(DB00003)	GAGCCTCGTCGCCCACGTAGG	0.592													23	69					0	0	0.003330	0	0	
ABCB10	23456	broad.mit.edu	37	1	229676376	229676376	+	Missense_Mutation	SNP	C	T	T	rs143346649		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:229676376C>T	uc001htp.3	-	5	1223	c.1180G>A	c.(1180-1182)GCC>ACC	p.A394T		NM_012089	NP_036221	Q9NRK6	ABCBA_HUMAN	ATP-binding cassette, sub-family B, member 10	394	Mitochondrial intermembrane (Potential).|Mitochondrial matrix (Potential).|ABC transmembrane type-1.					integral to mitochondrial membrane|mitochondrial inner membrane	ATP binding|oligopeptide-transporting ATPase activity			breast(2)	2	Breast(184;0.143)|Ovarian(103;0.249)	Prostate(94;0.167)				CCAGCCCGGGCGAATGCCTCT	0.413													30	71					0	0	0.002096	0	0	
TAF5L	27097	broad.mit.edu	37	1	229730363	229730363	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:229730363G>A	uc001htq.2	-	5	1617	c.1451C>T	c.(1450-1452)GCG>GTG	p.A484V		NM_014409	NP_055224	O75529	TAF5L_HUMAN	PCAF associated factor 65 beta isoform a	484	WD 5.				histone H3 acetylation|transcription from RNA polymerase II promoter	STAGA complex|transcription factor TFTC complex	sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)	1	Breast(184;0.193)|Ovarian(103;0.249)	Prostate(94;0.167)				GCCAGCAGACGCCAAGTACTT	0.587													11	65					0	0	0.001855	0	0	
URB2	9816	broad.mit.edu	37	1	229771702	229771702	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:229771702G>A	uc001hts.1	+	4	1478	c.1342G>A	c.(1342-1344)GCC>ACC	p.A448T	URB2_uc009xfd.1_Missense_Mutation_p.A448T	NM_014777	NP_055592	Q14146	URB2_HUMAN	URB2 ribosome biogenesis 2 homolog	448						nucleolus				central_nervous_system(2)|ovary(1)	3						AACCAAAAAAGCCCAGGAGGC	0.493													30	79					0	0	0.007291	0	0	
URB2	9816	broad.mit.edu	37	1	229783427	229783427	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:229783427G>T	uc001hts.1	+	7	4213	c.4077G>T	c.(4075-4077)AAG>AAT	p.K1359N	URB2_uc009xfd.1_Missense_Mutation_p.K1359N	NM_014777	NP_055592	Q14146	URB2_HUMAN	URB2 ribosome biogenesis 2 homolog	1359						nucleolus				central_nervous_system(2)|ovary(1)	3						ACCATCTGAAGCCGCTGGAGT	0.607													17	47					3.51602e-12	3.80537e-12	0.008871	1	0	
PGBD5	79605	broad.mit.edu	37	1	230492910	230492910	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:230492910C>T	uc010pwb.1	-	2	282	c.282G>A	c.(280-282)ACG>ACA	p.T94T	PGBD5_uc001htv.2_Silent_p.T193T	NM_024554	NP_078830	Q8N414	PGBD5_HUMAN	piggyBac transposable element derived 5	94						integral to membrane				ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(184;0.0397)	Prostate(94;0.167)		GBM - Glioblastoma multiforme(131;0.201)		TCTCCGTCAGCGTCACCTCCA	0.577													9	31					0	0	0.006214	0	0	
CAPN9	10753	broad.mit.edu	37	1	230910313	230910313	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:230910313C>T	uc001htz.1	+	8	1002	c.889C>T	c.(889-891)CGT>TGT	p.R297C	CAPN9_uc009xfg.1_Missense_Mutation_p.R234C|CAPN9_uc001hua.1_Intron	NM_006615	NP_006606	O14815	CAN9_HUMAN	calpain 9 isoform 1	297	Calpain catalytic.				digestion|proteolysis	intracellular	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			ovary(1)	1	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.167)				TCCGGAGTGGCGTTCTGTTGG	0.498													12	47					0	0	0.001368	0	0	
TTC13	79573	broad.mit.edu	37	1	231090101	231090101	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:231090101C>T	uc001huf.3	-	4	522	c.491G>A	c.(490-492)CGG>CAG	p.R164Q	TTC13_uc009xfi.2_Missense_Mutation_p.R164Q|TTC13_uc009xfj.2_RNA|TTC13_uc001hug.3_Missense_Mutation_p.R164Q|TTC13_uc009xfk.1_Missense_Mutation_p.R107Q	NM_024525	NP_078801	Q8NBP0	TTC13_HUMAN	tetratricopeptide repeat domain 13 isoform a	164	TPR 1.						binding			ovary(1)|skin(1)	2	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.167)		COAD - Colon adenocarcinoma(196;0.243)		TGAAAAATGCCGTATTGCTTC	0.303													7	30					0	0	0.001984	0	0	
EXOC8	149371	broad.mit.edu	37	1	231471819	231471819	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:231471819T>C	uc001huq.2	-	1	1760	c.1673A>G	c.(1672-1674)TAC>TGC	p.Y558C		NM_175876	NP_787072	Q8IYI6	EXOC8_HUMAN	exocyst complex 84-kDa subunit	558					exocytosis|protein transport	growth cone|nucleus	protein binding			skin(1)	1	Breast(184;0.0871)	all_cancers(173;0.151)|Prostate(94;0.183)				GATTTCTTTGTAACTGTGCAA	0.483													19	49					0	0	0.007413	0	0	
NID1	4811	broad.mit.edu	37	1	236228195	236228195	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:236228195G>A	uc001hxo.2	-	1	287	c.185C>T	c.(184-186)GCG>GTG	p.A62V	NID1_uc009xgd.2_Missense_Mutation_p.A62V|uc001hxp.1_Silent_p.A112A	NM_002508	NP_002499	P14543	NID1_HUMAN	nidogen 1 precursor	62					cell-matrix adhesion	basement membrane	calcium ion binding			large_intestine(1)|pancreas(1)	2	Ovarian(103;0.0544)|Breast(184;0.23)	all_cancers(173;0.00491)|Prostate(94;0.184)|Acute lymphoblastic leukemia(190;0.229)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)		Becaplermin(DB00102)|Urokinase(DB00013)	GAAGCGGAGCGCCCCACTCAG	0.597													5	6					0	0	0.003080	0	0	
HEATR1	55127	broad.mit.edu	37	1	236721600	236721600	+	Missense_Mutation	SNP	G	A	A	rs143495736	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:236721600G>A	uc001hyd.1	-	36	5266	c.5141C>T	c.(5140-5142)GCG>GTG	p.A1714V	HEATR1_uc009xgh.1_Missense_Mutation_p.A876V	NM_018072	NP_060542	Q9H583	HEAT1_HUMAN	protein BAP28	1714					rRNA processing	nucleolus|ribonucleoprotein complex	protein binding			ovary(2)|skin(1)	3	Ovarian(103;0.0634)|Breast(184;0.133)	all_cancers(173;0.0255)|Prostate(94;0.175)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			GCACAGCAGCGCGCTTCCCAG	0.562													9	58					0	0	0.004482	0	0	
MTR	4548	broad.mit.edu	37	1	237054573	237054573	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:237054573G>A	uc001hyi.3	+	29	3571	c.3148G>A	c.(3148-3150)GCT>ACT	p.A1050T	MTR_uc010pxw.1_Missense_Mutation_p.A643T|MTR_uc010pxx.1_Missense_Mutation_p.A999T|MTR_uc010pxy.1_Missense_Mutation_p.A904T	NM_000254	NP_000245	Q99707	METH_HUMAN	5-methyltetrahydrofolate-homocysteine	1050	AdoMet activation.				nervous system development|xenobiotic metabolic process	cytosol	cobalamin binding|homocysteine S-methyltransferase activity|methionine synthase activity|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;2.79e-22)|all_epithelial(177;4.84e-14)|Breast(1374;0.00123)|Prostate(94;0.0181)|Lung SC(1967;0.0262)|Acute lymphoblastic leukemia(190;0.117)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)	KIRC - Kidney renal clear cell carcinoma(1967;0.248)	Hydroxocobalamin(DB00200)|L-Methionine(DB00134)|Tetrahydrofolic acid(DB00116)	GTACGCAGAGGCTGCTGTGCC	0.557													26	58					0	0	0.002836	0	0	
RYR2	6262	broad.mit.edu	37	1	237664107	237664107	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:237664107C>T	uc001hyl.1	+	21	2420	c.2300C>T	c.(2299-2301)TCG>TTG	p.S767L		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	767	Cytoplasmic (By similarity).|B30.2/SPRY 1.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			CCAAGCATCTCGTTCCGAATT	0.408													74	147					0	0	0.003610	0	0	
RYR2	6262	broad.mit.edu	37	1	237753955	237753955	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:237753955G>A	uc001hyl.1	+	31	3943	c.3823G>A	c.(3823-3825)GGC>AGC	p.G1275S		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1275	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			CAGAATAGACGGCACCATAGA	0.423													6	178					0	0	0.001168	0	0	
RYR2	6262	broad.mit.edu	37	1	237774245	237774245	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:237774245G>A	uc001hyl.1	+	36	4987	c.4867G>A	c.(4867-4869)GAT>AAT	p.D1623N		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1623	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GCAGTGTTTGGATCCTCTGCA	0.507													4	6					0	0	0.009096	0	0	
RYR2	6262	broad.mit.edu	37	1	237780631	237780631	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:237780631C>G	uc001hyl.1	+	38	5881	c.5761C>G	c.(5761-5763)CGG>GGG	p.R1921G		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1921	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GGTCCGGCACCGGATAGAAGC	0.413													13	37					0	0	0.002450	0	0	
KMO	8564	broad.mit.edu	37	1	241695795	241695795	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:241695795C>A	uc009xgp.2	+	1	116	c.51C>A	c.(49-51)GGC>GGA	p.G17G	KMO_uc001hyy.2_Silent_p.G17G|KMO_uc009xgo.1_Silent_p.G17G	NM_003679	NP_003670	O15229	KMO_HUMAN	kynurenine 3-monooxygenase	17					pyridine nucleotide biosynthetic process|response to salt stress	cytosol|integral to membrane|mitochondrial outer membrane	electron carrier activity|flavin adenine dinucleotide binding|kynurenine 3-monooxygenase activity|NAD(P)H oxidase activity			ovary(2)	2	Ovarian(103;0.103)|all_lung(81;0.23)		OV - Ovarian serous cystadenocarcinoma(106;0.0176)			TTGGTGGTGGCTTGGTAAGAA	0.328													23	87					7.26314e-15	7.90183e-15	0.007291	1	0	
ZNF238	10472	broad.mit.edu	37	1	244217659	244217659	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:244217659C>T	uc001iae.2	+	1	1078	c.556C>T	c.(556-558)CGA>TGA	p.R186*	ZNF238_uc001iad.3_Nonsense_Mutation_p.R195*|ZNF238_uc001iaf.1_Nonsense_Mutation_p.R186*	NM_006352	NP_006343	Q99592	ZN238_HUMAN	zinc finger protein 238 isoform 2	186				KLNILPSKRDLAAEPGNMWMRLPSDSAGIPQAGGEAEPHAT AAGKTVASPCSSTESLSQRSVTSVRDSADVDCVLDLSVKSS LSGVENLNSSYFSSQ -> IEHPAQQKGLGGRAWEHVDAIA LRLSRHPPGWRRGRATRHSSWKNSSQPLQLNRVFVPE (in Ref. 1; AAA81368).	negative regulation of transcription from RNA polymerase II promoter|skeletal muscle tissue development	nuclear chromosome	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|pancreas(2)	5	all_cancers(71;6.42e-05)|all_epithelial(71;7e-05)|Breast(184;0.0333)|Ovarian(71;0.0619)|all_lung(81;0.089)|all_neural(11;0.101)|Lung NSC(105;0.123)		all cancers(7;1.35e-08)|GBM - Glioblastoma multiforme(7;1e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00223)			CATGTGGATGCGATTGCCCTC	0.572													4	32					0	0	0.001168	0	0	
PPPDE1	51029	broad.mit.edu	37	1	244869074	244869074	+	Missense_Mutation	SNP	C	T	T	rs141603902		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:244869074C>T	uc001iao.2	+	5	832	c.568C>T	c.(568-570)CGC>TGC	p.R190C	PPPDE1_uc001iap.2_Missense_Mutation_p.R157C|PPPDE1_uc001iaq.1_RNA	NM_016076	NP_057160	Q9BSY9	PPDE1_HUMAN	PPPDE peptidase domain containing 1	190										breast(3)	3						CAGACCCGGGCGCCACACTAA	0.502													12	19					0	0	0.001368	0	0	
ZNF124	7678	broad.mit.edu	37	1	247320104	247320104	+	Missense_Mutation	SNP	C	T	T	rs139164874	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:247320104C>T	uc001ick.2	-	4	959	c.820G>A	c.(820-822)GCC>ACC	p.A274T	ZNF124_uc001ici.2_Intron|ZNF124_uc001icj.1_Missense_Mutation_p.A212T	NM_003431	NP_003422	Q15973	ZN124_HUMAN	zinc finger protein 124	274	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1	all_cancers(71;5.07e-05)|all_epithelial(71;8.72e-06)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0488)|Lung NSC(105;0.053)		OV - Ovarian serous cystadenocarcinoma(106;0.00739)			AGGGAACTGGCGTATCTGAAG	0.433													10	103					0	0	0.000978	0	0	
ZNF496	84838	broad.mit.edu	37	1	247492570	247492570	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:247492570G>A	uc001ico.2	-	3	776	c.311C>T	c.(310-312)GCG>GTG	p.A104V	ZNF496_uc009xgv.2_Missense_Mutation_p.A104V|ZNF496_uc001icp.2_Missense_Mutation_p.A104V|ZNF496_uc010pyv.1_Missense_Mutation_p.A104V	NM_032752	NP_116141	Q96IT1	ZN496_HUMAN	zinc finger protein 496	104	SCAN box.				positive regulation of transcription, DNA-dependent|viral reproduction		DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(71;0.000136)|all_epithelial(71;2.62e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0607)|Lung NSC(105;0.0661)		OV - Ovarian serous cystadenocarcinoma(106;0.00703)			AGGCTCCTGCGCCCGCACCCA	0.677													11	17					0	0	0.003163	0	0	
ZNF496	84838	broad.mit.edu	37	1	247492680	247492680	+	Silent	SNP	G	A	A	rs140768491		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:247492680G>A	uc001ico.2	-	3	666	c.201C>T	c.(199-201)TGC>TGT	p.C67C	ZNF496_uc009xgv.2_Silent_p.C67C|ZNF496_uc001icp.2_Silent_p.C67C|ZNF496_uc010pyv.1_Silent_p.C67C	NM_032752	NP_116141	Q96IT1	ZN496_HUMAN	zinc finger protein 496	67	SCAN box.				positive regulation of transcription, DNA-dependent|viral reproduction		DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(71;0.000136)|all_epithelial(71;2.62e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0607)|Lung NSC(105;0.0661)		OV - Ovarian serous cystadenocarcinoma(106;0.00703)			GCCAGCCCCCGCACAGGTCCC	0.697													5	19					0	0	0.001168	0	0	
OR2W5	441932	broad.mit.edu	37	1	247654661	247654661	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:247654661G>A	uc001icz.1	+	1	232	c.232G>A	c.(232-234)GCC>ACC	p.A78T		NM_001004698	NP_001004698	A6NFC9	OR2W5_HUMAN	olfactory receptor, family 2, subfamily W,	78	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.222)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			AGCAAGCATTGCCCCTCAGCT	0.527													10	36					0	0	0.006214	0	0	
OR2G2	81470	broad.mit.edu	37	1	247752569	247752569	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:247752569C>T	uc010pyy.1	+	1	908	c.908C>T	c.(907-909)GCA>GTA	p.A303V		NM_001001915	NP_001001915	Q8NGZ5	OR2G2_HUMAN	olfactory receptor, family 2, subfamily G,	303	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			GTGAAAGGGGCATTAAAGAAA	0.358													5	96					0	0	0.000602	0	0	
OR2M3	127062	broad.mit.edu	37	1	248366705	248366705	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:248366705C>T	uc010pzg.1	+	1	336	c.336C>T	c.(334-336)TGC>TGT	p.C112C		NM_001004689	NP_001004689	Q8NG83	OR2M3_HUMAN	olfactory receptor, family 2, subfamily M,	112	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			GCTCTGAGTGCTTTCTTTTGG	0.453													12	191					0	0	0.003163	0	0	
OR2T4	127074	broad.mit.edu	37	1	248525590	248525590	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:248525590C>T	uc001ieh.1	+	1	708	c.708C>T	c.(706-708)GTC>GTT	p.V236V		NM_001004696	NP_001004696	Q8NH00	OR2T4_HUMAN	olfactory receptor, family 2, subfamily T,	236	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TGTGCTGTGTCCTCATGCTCC	0.483													8	139					0	0	0.003080	0	0	
SH3BP5L	80851	broad.mit.edu	37	1	249108714	249108714	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:249108714G>A	uc001iew.1	-	5	1023	c.471C>T	c.(469-471)GGC>GGT	p.G157G	SH3BP5L_uc010pzp.1_Silent_p.G50G|SH3BP5L_uc010pzq.1_Silent_p.G125G|SH3BP5L_uc001iev.1_Silent_p.G38G	NM_030645	NP_085148	Q7L8J4	3BP5L_HUMAN	SH3-binding domain protein 5-like	157											0	all_cancers(71;3.33e-06)|all_epithelial(71;2.41e-06)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.0458)|Lung NSC(105;0.0494)|Melanoma(84;0.199)	all_cancers(173;0.19)	OV - Ovarian serous cystadenocarcinoma(106;0.00805)			CAGCCATGACGCCCTGCTCAG	0.627													5	17					0	0	0.001168	0	0	
DIP2C	22982	broad.mit.edu	37	10	430000	430000	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:430000G>A	uc001ifp.2	-	16	1933	c.1843C>T	c.(1843-1845)CGA>TGA	p.R615*	DIP2C_uc009xhj.1_Nonsense_Mutation_p.R311*	NM_014974	NP_055789	Q9Y2E4	DIP2C_HUMAN	DIP2 disco-interacting protein 2 homolog C	615						nucleus	catalytic activity|transcription factor binding			breast(4)|ovary(2)|large_intestine(1)	7		all_cancers(4;0.00336)|all_lung(4;0.00732)|Lung NSC(4;0.00785)|all_epithelial(10;0.0159)|Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.136)	Epithelial(11;0.0123)|all cancers(11;0.0467)|Lung(33;0.0864)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		ATCAGCATTCGCAGAGAGGAG	0.483													14	41					0	0	0.003163	0	0	
GTPBP4	23560	broad.mit.edu	37	10	1043150	1043150	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:1043150C>T	uc001ift.2	+	5	534	c.463C>T	c.(463-465)CGT>TGT	p.R155C	GTPBP4_uc010qac.1_5'UTR|GTPBP4_uc001ifu.2_RNA|GTPBP4_uc010qad.1_Missense_Mutation_p.R39C|GTPBP4_uc010qae.1_Missense_Mutation_p.R108C	NM_012341	NP_036473	Q9BZE4	NOG1_HUMAN	G protein-binding protein CRFG	155					negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of cell-cell adhesion|negative regulation of collagen binding|negative regulation of DNA replication|negative regulation of protein ubiquitination|protein stabilization|regulation of cyclin-dependent protein kinase activity|ribosome biogenesis	nucleolus|perinuclear region of cytoplasm	GTP binding|GTPase activity|protein binding			ovary(1)|skin(1)	2		all_epithelial(10;0.107)|Colorectal(49;0.14)	OV - Ovarian serous cystadenocarcinoma(33;0.0814)	Epithelial(11;0.0513)|all cancers(11;0.135)|OV - Ovarian serous cystadenocarcinoma(14;0.173)		TTTCCTAGTGCGTCAGCATTT	0.383													60	172					0	0	0.003610	0	0	
PFKP	5214	broad.mit.edu	37	10	3124630	3124630	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:3124630G>A	uc001igp.2	+	2	199	c.163G>A	c.(163-165)GCC>ACC	p.A55T	PFKP_uc001igq.2_Missense_Mutation_p.G20D|PFKP_uc009xhr.2_Missense_Mutation_p.A17T	NM_002627	NP_002618	Q01813	K6PP_HUMAN	phosphofructokinase, platelet	55					glycolysis	6-phosphofructokinase complex	6-phosphofructokinase activity|ATP binding|metal ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3				GBM - Glioblastoma multiforme(1;0.000975)|all cancers(11;0.00351)|Epithelial(11;0.142)		CTACGTGGGGGCCAAGGTGTA	0.488													10	47					0	0	0.008291	0	0	
PFKP	5214	broad.mit.edu	37	10	3154433	3154433	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:3154433C>T	uc001igp.2	+	11	1145	c.1109C>T	c.(1108-1110)GCG>GTG	p.A370V	PFKP_uc001igq.2_Missense_Mutation_p.A362V|PFKP_uc009xhr.2_Missense_Mutation_p.A332V|PFKP_uc009xhs.1_Missense_Mutation_p.A154V|PFKP_uc009xht.2_Missense_Mutation_p.A108V|PFKP_uc009xhu.2_5'Flank	NM_002627	NP_002618	Q01813	K6PP_HUMAN	phosphofructokinase, platelet	370					glycolysis	6-phosphofructokinase complex	6-phosphofructokinase activity|ATP binding|metal ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3				GBM - Glioblastoma multiforme(1;0.000975)|all cancers(11;0.00351)|Epithelial(11;0.142)		GTGCAGAAGGCGATGGACGAG	0.522													6	83					0	0	0.001168	0	0	
TUBAL3	79861	broad.mit.edu	37	10	5435974	5435974	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:5435974C>T	uc001ihy.2	-	4	887	c.847G>A	c.(847-849)GTC>ATC	p.V283I	TUBAL3_uc001ihz.2_Missense_Mutation_p.V243I	NM_024803	NP_079079	A6NHL2	TBAL3_HUMAN	tubulin, alpha-like 3	283					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			skin(1)	1						TCAGCAGAGACGATGGGGGCG	0.517													8	110					0	0	0.003080	0	0	
C10orf18	54906	broad.mit.edu	37	10	5772453	5772453	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:5772453T>C	uc001iij.2	+	11	1116	c.491T>C	c.(490-492)GTG>GCG	p.V164A	C10orf18_uc001iik.2_5'Flank	NM_017782	NP_060252	Q5VWN6	CJ018_HUMAN	hypothetical protein LOC54906	164										ovary(1)|central_nervous_system(1)	2						ATTCTAGGGGTGAAAGATTTG	0.303													15	65					0	0	0.004990	0	0	
C10orf18	54906	broad.mit.edu	37	10	5788414	5788414	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:5788414G>A	uc001iij.2	+	15	3655	c.3030G>A	c.(3028-3030)GTG>GTA	p.V1010V	C10orf18_uc001iik.2_Intron	NM_017782	NP_060252	Q5VWN6	CJ018_HUMAN	hypothetical protein LOC54906	1010										ovary(1)|central_nervous_system(1)	2						ATGCAGCAGTGCAAACAAAAA	0.458													28	49					0	0	0.008361	0	0	
SFMBT2	57713	broad.mit.edu	37	10	7247845	7247845	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:7247845A>T	uc009xio.1	-	12	1467	c.1376T>A	c.(1375-1377)ATG>AAG	p.M459K	SFMBT2_uc001ijn.1_Missense_Mutation_p.M459K|SFMBT2_uc010qay.1_Intron	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	459	MBT 4.				regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8						GAAGATGTCCATGGATTCCAC	0.478													5	56					0	0	0.000602	0	0	
SFMBT2	57713	broad.mit.edu	37	10	7409677	7409677	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:7409677C>G	uc009xio.1	-	4	461	c.370G>C	c.(370-372)GTC>CTC	p.V124L	SFMBT2_uc001ijn.1_Missense_Mutation_p.V124L|SFMBT2_uc010qay.1_Missense_Mutation_p.V124L|SFMBT2_uc001ijo.1_Missense_Mutation_p.V124L	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	124	MBT 1.				regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8						TCCGCGATGACTACGTCACAC	0.602													10	27					0	0	0.008291	0	0	
ITIH5	80760	broad.mit.edu	37	10	7605039	7605039	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:7605039C>T	uc001ijq.2	-	14	2915	c.2836G>A	c.(2836-2838)GCA>ACA	p.A946T	ITIH5_uc001ijp.2_Missense_Mutation_p.A732T	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	Error:Variant_position_missing_in_Q86UX2_after_alignment					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4						TTTAAGGCTGCCAGCTTCAGA	0.537													53	177					0	0	0.003610	0	0	
DHTKD1	55526	broad.mit.edu	37	10	12136162	12136162	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:12136162G>A	uc001ild.3	+	7	1349	c.1250G>A	c.(1249-1251)CGC>CAC	p.R417H		NM_018706	NP_061176	Q96HY7	DHTK1_HUMAN	dehydrogenase E1 and transketolase domain	417					glycolysis	mitochondrion	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			ovary(1)|central_nervous_system(1)	2		Renal(717;0.228)	BRCA - Breast invasive adenocarcinoma(52;0.188)			GAATACCAACGCCAGTTCCGC	0.517													14	52					0	0	0.002450	0	0	
CAMK1D	57118	broad.mit.edu	37	10	12833171	12833171	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:12833171G>A	uc001ilo.2	+	6	815	c.580G>A	c.(580-582)GCC>ACC	p.A194T	CAMK1D_uc001iln.2_Missense_Mutation_p.A194T	NM_153498	NP_705718	Q8IU85	KCC1D_HUMAN	calcium/calmodulin-dependent protein kinase ID	194	Protein kinase.					calcium- and calmodulin-dependent protein kinase complex|cytoplasm|nucleus	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(1)|stomach(1)	2				GBM - Glioblastoma multiforme(1;3.16e-05)		TGAAGTCCTCGCCCAGAAACC	0.502													17	67					0	0	0.004990	0	0	
MCM10	55388	broad.mit.edu	37	10	13213246	13213246	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:13213246C>T	uc001ima.2	+	3	433	c.332C>T	c.(331-333)ACG>ATG	p.T111M	MCM10_uc001imb.2_Missense_Mutation_p.T111M|MCM10_uc001imc.2_Missense_Mutation_p.T111M	NM_182751	NP_877428	Q7L590	MCM10_HUMAN	minichromosome maintenance complex component 10	111					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle	nucleoplasm	metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3						CGAGAGAAAACGAATGAAGAG	0.448													4	38					0	0	0.009096	0	0	
FAM188A	80013	broad.mit.edu	37	10	15838155	15838155	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:15838155G>A	uc001iod.1	-	11	1120	c.899C>T	c.(898-900)GCC>GTC	p.A300V	FAM188A_uc001ioe.1_Missense_Mutation_p.A127V|FAM188A_uc001iof.1_Missense_Mutation_p.A300V	NM_024948	NP_079224	Q9H8M7	F188A_HUMAN	chromosome 10 open reading frame 97	300					apoptosis	nucleus	calcium ion binding			ovary(1)	1						AGCTTCAGGGGCAACTAAAGC	0.373													6	129					0	0	0.003080	0	0	
CUBN	8029	broad.mit.edu	37	10	16970170	16970170	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:16970170G>A	uc001ioo.2	-	41	6309	c.6257C>T	c.(6256-6258)GCA>GTA	p.A2086V		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	2086	CUB 14.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	GTGAAAGGATGCATTGAAGCC	0.363													16	66					0	0	0.007413	0	0	
VIM	7431	broad.mit.edu	37	10	17277251	17277251	+	Silent	SNP	C	T	T	rs116696668	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:17277251C>T	uc001iou.2	+	7	1505	c.1092C>T	c.(1090-1092)CGC>CGT	p.R364R	VIM_uc001iov.1_Silent_p.R364R|VIM_uc001iow.1_RNA|VIM_uc001iox.1_Silent_p.R364R|VIM_uc001ioy.1_Intron|VIM_uc001ioz.1_RNA|VIM_uc001ipb.1_RNA|VIM_uc009xjv.1_Silent_p.R322R|VIM_uc001ipc.1_Silent_p.R364R	NM_003380	NP_003371	P08670	VIME_HUMAN	vimentin	364	Rod.|Coil 2.				cellular component disassembly involved in apoptosis|cellular component movement|interspecies interaction between organisms|muscle filament sliding	cytosol|intermediate filament	protein C-terminus binding|structural constituent of cytoskeleton			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4						CTATTGGCCGCCTGCAGGATG	0.483													8	78					0	0	0.003080	0	0	
CACNB2	783	broad.mit.edu	37	10	18816561	18816561	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:18816561G>A	uc001ipr.2	+	10	1049	c.989G>A	c.(988-990)CGC>CAC	p.R330H	CACNB2_uc009xjz.1_Intron|CACNB2_uc001ips.2_Missense_Mutation_p.R306H|CACNB2_uc001ipt.2_Missense_Mutation_p.R292H|CACNB2_uc010qcl.1_RNA|CACNB2_uc001ipu.2_Missense_Mutation_p.R302H|CACNB2_uc001ipv.2_Missense_Mutation_p.R278H|CACNB2_uc009xka.1_Missense_Mutation_p.R264H|CACNB2_uc001ipw.2_Missense_Mutation_p.R237H|CACNB2_uc001ipx.2_Missense_Mutation_p.R275H|CACNB2_uc001ipz.2_Missense_Mutation_p.R252H|CACNB2_uc001ipy.2_Missense_Mutation_p.R276H|CACNB2_uc010qco.1_Missense_Mutation_p.R244H|CACNB2_uc001iqa.2_Missense_Mutation_p.R282H|NSUN6_uc001iqb.2_Intron	NM_201596	NP_963890	Q08289	CACB2_HUMAN	calcium channel, voltage-dependent, beta 2	330					axon guidance|neuromuscular junction development	integral to plasma membrane|sarcolemma|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			large_intestine(1)|central_nervous_system(1)|skin(1)	3					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	CTTGCCAAACGCTCGGTATTA	0.423													37	93					0	0	0.002522	0	0	
ARL5B	221079	broad.mit.edu	37	10	18957477	18957477	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:18957477T>C	uc001iqd.1	+	3	380	c.126T>C	c.(124-126)GTT>GTC	p.V42V		NM_178815	NP_848930	Q96KC2	ARL5B_HUMAN	ADP-ribosylation factor-like 8	42					small GTPase mediated signal transduction	intracellular	GTP binding			ovary(1)	1						ATGAAGTGGTTCATACTTCTC	0.358													11	42					0	0	0.002450	0	0	
C10orf114	399726	broad.mit.edu	37	10	21785730	21785730	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:21785730T>A	uc001iqn.3	-	1	484	c.14A>T	c.(13-15)GAG>GTG	p.E5V	MIR1915_hsa-mir-1915|MI0008336_5'Flank	NM_001010911	NP_001010911	Q5T4H9	CJ114_HUMAN	hypothetical protein LOC399726	5											0						CCCTGAGGGCTCCCGCGATTG	0.642													4	10					0	0	0.001168	0	0	
BMI1	648	broad.mit.edu	37	10	22606821	22606821	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:22606821G>T	uc009xkg.2	+	2	196	c.148G>T	c.(148-150)GAC>TAC	p.D50Y	COMMD3_uc001ire.2_Missense_Mutation_p.D50Y|COMMD3_uc001irf.2_Missense_Mutation_p.D50Y|COMMD3_uc001irg.2_RNA	NM_005180	NP_005171	P35226	BMI1_HUMAN	BMI1 polycomb ring finger oncogene	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					hemopoiesis|negative regulation of transcription from RNA polymerase II promoter|positive regulation of fibroblast proliferation|positive regulation of ubiquitin-protein ligase activity|segment specification|transcription, DNA-dependent	cytoplasm|nucleolus|PcG protein complex|ubiquitin ligase complex	RING-like zinc finger domain binding|zinc ion binding			ovary(1)|skin(1)	2						AGATCATCCAGACTTGAAACA	0.363													21	79					2.32416e-17	2.53911e-17	0.002299	1	0	
PIP4K2A	5305	broad.mit.edu	37	10	22898568	22898568	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:22898568C>T	uc001irl.3	-	2	471	c.223G>A	c.(223-225)GAC>AAC	p.D75N		NM_005028	NP_005019	P48426	PI42A_HUMAN	phosphatidylinositol-5-phosphate 4-kinase, type	75	PIPK.						1-phosphatidylinositol-4-phosphate 5-kinase activity|1-phosphatidylinositol-5-phosphate 4-kinase activity|ATP binding			ovary(1)|skin(1)	2						AGGTGATTGTCCACCTTTATT	0.328													20	51					0	0	0.002299	0	0	
KIAA1217	56243	broad.mit.edu	37	10	24669946	24669946	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:24669946C>T	uc001iru.3	+	3	906	c.503C>T	c.(502-504)GCG>GTG	p.A168V	KIAA1217_uc001irs.2_Missense_Mutation_p.A88V|KIAA1217_uc001irt.3_Missense_Mutation_p.A168V|KIAA1217_uc010qcy.1_Missense_Mutation_p.A168V|KIAA1217_uc010qcz.1_Missense_Mutation_p.A168V|KIAA1217_uc001irv.1_Missense_Mutation_p.A18V|KIAA1217_uc010qda.1_RNA	NM_019590	NP_062536	Q5T5P2	SKT_HUMAN	sickle tail isoform 1	168					embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7						CGGACTCGTGCGAGCCTTCCT	0.522													11	25					0	0	0.000978	0	0	
KIAA1217	56243	broad.mit.edu	37	10	24727368	24727368	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:24727368C>T	uc001iru.3	+	5	1209	c.806C>T	c.(805-807)GCG>GTG	p.A269V	KIAA1217_uc001irs.2_Missense_Mutation_p.A189V|KIAA1217_uc001irt.3_Missense_Mutation_p.A269V|KIAA1217_uc010qcy.1_Missense_Mutation_p.A269V|KIAA1217_uc010qcz.1_Missense_Mutation_p.A269V|KIAA1217_uc001irv.1_Missense_Mutation_p.A119V|KIAA1217_uc010qda.1_RNA	NM_019590	NP_062536	Q5T5P2	SKT_HUMAN	sickle tail isoform 1	269					embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7						CCTGCACATGCGTTTAATCAC	0.413													7	157					0	0	0.003080	0	0	
KIAA1217	56243	broad.mit.edu	37	10	24816953	24816953	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:24816953C>T	uc001iru.3	+	14	3390	c.2987C>T	c.(2986-2988)GCC>GTC	p.A996V	KIAA1217_uc001irs.2_Missense_Mutation_p.A916V|KIAA1217_uc001irt.3_Missense_Mutation_p.A961V|KIAA1217_uc010qcy.1_Missense_Mutation_p.A961V|KIAA1217_uc010qcz.1_Missense_Mutation_p.A961V|KIAA1217_uc010qda.1_RNA|KIAA1217_uc001irw.2_Missense_Mutation_p.A679V|KIAA1217_uc001irz.2_Missense_Mutation_p.A679V|KIAA1217_uc001irx.2_Missense_Mutation_p.A679V|KIAA1217_uc001iry.2_Missense_Mutation_p.A679V	NM_019590	NP_062536	Q5T5P2	SKT_HUMAN	sickle tail isoform 1	996					embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7						GAAGCTCAGGCCAATATCATG	0.468													40	87					0	0	0.006230	0	0	
GPR158	57512	broad.mit.edu	37	10	25887280	25887280	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:25887280G>A	uc001isj.2	+	11	2785	c.2725G>A	c.(2725-2727)GCC>ACC	p.A909T	GPR158_uc001isk.2_Missense_Mutation_p.A284T	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	909	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						CATAGCAAGCGCCAAGGAGAA	0.478													16	232					0	0	0.006122	0	0	
GPR158	57512	broad.mit.edu	37	10	25888009	25888009	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:25888009C>T	uc001isj.2	+	11	3514	c.3454C>T	c.(3454-3456)CGT>TGT	p.R1152C	GPR158_uc001isk.2_Missense_Mutation_p.R527C	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	1152	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						GGAGAATGTGCGTGGCTCCTA	0.443													14	63					0	0	0.004990	0	0	
PDSS1	23590	broad.mit.edu	37	10	26998655	26998655	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:26998655C>T	uc001isv.2	+	5	471	c.425C>T	c.(424-426)GCG>GTG	p.A142V	PDSS1_uc001isw.2_Missense_Mutation_p.A142V	NM_014317	NP_055132	Q5T2R2	DPS1_HUMAN	prenyl diphosphate synthase, subunit 1	142				A -> V (in Ref. 1; AAD28559).	isoprenoid biosynthetic process|ubiquinone biosynthetic process	mitochondrion	metal ion binding|protein heterodimerization activity				0						ATTATTGTGGCGCTAATGGCC	0.393													6	129					0	0	0.001168	0	0	
ANKRD26	22852	broad.mit.edu	37	10	27301829	27301829	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:27301829C>T	uc001ith.2	-	32	5104	c.4932G>A	c.(4930-4932)ATG>ATA	p.M1644I	ANKRD26_uc001itg.2_Missense_Mutation_p.M1331I|ANKRD26_uc009xku.1_Missense_Mutation_p.M1645I	NM_014915	NP_055730	Q9UPS8	ANR26_HUMAN	ankyrin repeat domain 26	1644						centrosome				large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|skin(1)	4						AGTAGTTCTCCATGCTATTAT	0.279													6	93					0	0	0.003080	0	0	
PTCHD3	374308	broad.mit.edu	37	10	27702400	27702400	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:27702400C>T	uc001itu.2	-	1	898	c.780G>A	c.(778-780)GCG>GCA	p.A260A		NM_001034842	NP_001030014	Q3KNS1	PTHD3_HUMAN	patched domain containing 3	260					spermatid development	integral to membrane	hedgehog receptor activity			ovary(2)|pancreas(1)|skin(1)	4						GCACGCAGAGCGCCCTGTACC	0.632													7	13					0	0	0.003080	0	0	
PTCHD3	374308	broad.mit.edu	37	10	27702950	27702950	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:27702950C>T	uc001itu.2	-	1	348	c.230G>A	c.(229-231)CGG>CAG	p.R77Q		NM_001034842	NP_001030014	Q3KNS1	PTHD3_HUMAN	patched domain containing 3	77					spermatid development	integral to membrane	hedgehog receptor activity			ovary(2)|pancreas(1)|skin(1)	4						CATCGACGGCCGGGGGGGTGC	0.721													4	9					0	0	0.001168	0	0	
LYZL1	84569	broad.mit.edu	37	10	29580930	29580930	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:29580930G>A	uc001iul.2	+	2	329	c.272G>A	c.(271-273)GGA>GAA	p.G91E		NM_032517	NP_115906	Q6UWQ5	LYZL1_HUMAN	lysozyme-like 1	45					cell wall macromolecule catabolic process	extracellular region	lysozyme activity				0		Breast(68;0.203)				TTCAGCCTTGGAAACTGTGAG	0.522													21	66					0	0	0.002780	0	0	
MAP3K8	1326	broad.mit.edu	37	10	30748327	30748327	+	Silent	SNP	G	A	A	rs141896473		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:30748327G>A	uc001ivi.1	+	8	1866	c.1170G>A	c.(1168-1170)CCG>CCA	p.P390P	MAP3K8_uc009xlf.1_Silent_p.P390P|MAP3K8_uc001ivj.1_Silent_p.P390P	NM_005204	NP_005195	P41279	M3K8_HUMAN	mitogen-activated protein kinase kinase kinase	390					cell cycle|T cell costimulation	cytosol	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein binding			breast(3)|central_nervous_system(1)	4		Prostate(175;0.151)				CCCTGAACCCGCCCAGAGAGG	0.567													13	36					0	0	0.001368	0	0	
ZNF438	220929	broad.mit.edu	37	10	31137485	31137485	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:31137485G>A	uc010qdz.1	-	7	2284	c.1849C>T	c.(1849-1851)CGA>TGA	p.R617*	ZNF438_uc001ivn.2_Nonsense_Mutation_p.R568*|ZNF438_uc010qdy.1_Nonsense_Mutation_p.R607*|ZNF438_uc001ivo.3_Nonsense_Mutation_p.R181*|ZNF438_uc009xlg.2_Nonsense_Mutation_p.R617*|ZNF438_uc001ivp.3_Nonsense_Mutation_p.R607*|ZNF438_uc010qea.1_Nonsense_Mutation_p.R617*|ZNF438_uc010qeb.1_Nonsense_Mutation_p.R617*|ZNF438_uc010qec.1_Nonsense_Mutation_p.R181*	NM_182755	NP_877432	Q7Z4V0	ZN438_HUMAN	zinc finger protein 438 isoform a	617					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)	2		Prostate(175;0.0587)				TCCATGCCTCGCACACTCATG	0.498													5	70					0	0	0.000602	0	0	
NRP1	8829	broad.mit.edu	37	10	33496560	33496560	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:33496560C>T	uc001iwx.3	-	10	2222	c.1699G>A	c.(1699-1701)GAG>AAG	p.E567K	NRP1_uc001iwv.3_Missense_Mutation_p.E567K|NRP1_uc009xlz.2_Missense_Mutation_p.E567K|NRP1_uc001iww.3_Missense_Mutation_p.E386K|NRP1_uc001iwy.3_Missense_Mutation_p.E567K|NRP1_uc001iwz.2_Missense_Mutation_p.E567K|NRP1_uc001ixa.2_Missense_Mutation_p.E567K|NRP1_uc001ixb.1_Missense_Mutation_p.E567K	NM_003873	NP_003864	O14786	NRP1_HUMAN	neuropilin 1 isoform a	567	Extracellular (Potential).|F5/8 type C 2.				axon guidance|cell adhesion|cell-cell signaling|organ morphogenesis|positive regulation of cell proliferation	extracellular region|integral to membrane|plasma membrane	growth factor binding|heparin binding|metal ion binding|vascular endothelial growth factor receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4					Palifermin(DB00039)|Pegaptanib(DB04895)	GTGGCTCTCTCGGGGTAGATC	0.493													38	118					0	0	0.007835	0	0	
PARD3	56288	broad.mit.edu	37	10	34626277	34626277	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:34626277C>T	uc010qej.1	-	17	2495	c.2495G>A	c.(2494-2496)CGC>CAC	p.R832H	PARD3_uc010qek.1_Missense_Mutation_p.R829H|PARD3_uc010qel.1_Missense_Mutation_p.R832H|PARD3_uc010qem.1_Missense_Mutation_p.R816H|PARD3_uc010qen.1_Intron|PARD3_uc010qeo.1_Intron|PARD3_uc010qep.1_Intron|PARD3_uc010qeq.1_Missense_Mutation_p.R772H|PARD3_uc001ixo.1_Missense_Mutation_p.R546H|PARD3_uc001ixp.1_Intron|PARD3_uc001ixq.1_Intron|PARD3_uc001ixr.1_Missense_Mutation_p.R829H|PARD3_uc001ixt.1_Missense_Mutation_p.R650H|PARD3_uc001ixu.1_Missense_Mutation_p.R775H|PARD3_uc001ixs.1_Intron	NM_019619	NP_062565	Q8TEW0	PARD3_HUMAN	partitioning-defective protein 3 homolog	832	Interacts with PRKCZ (By similarity).				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|asymmetric cell division|axonogenesis|cell cycle|establishment of epithelial cell polarity|protein complex assembly|protein targeting to membrane|tight junction assembly	cell cortex|cytoskeleton|cytosol|endomembrane system|tight junction	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|protein binding			ovary(1)	1		Breast(68;0.0707)				TTGCTTTGTGCGTTTTTCTGA	0.363													13	36					0	0	0.002450	0	0	
PARD3	56288	broad.mit.edu	37	10	34671594	34671594	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:34671594C>T	uc010qej.1	-	9	1273	c.1273G>A	c.(1273-1275)GCA>ACA	p.A425T	PARD3_uc010qek.1_Missense_Mutation_p.A425T|PARD3_uc010qel.1_Missense_Mutation_p.A425T|PARD3_uc010qem.1_Missense_Mutation_p.A425T|PARD3_uc010qen.1_Missense_Mutation_p.A425T|PARD3_uc010qeo.1_Missense_Mutation_p.A425T|PARD3_uc010qep.1_Missense_Mutation_p.A381T|PARD3_uc010qeq.1_Missense_Mutation_p.A381T|PARD3_uc001ixo.1_Missense_Mutation_p.A155T|PARD3_uc001ixp.1_Missense_Mutation_p.A290T|PARD3_uc001ixq.1_Missense_Mutation_p.A425T|PARD3_uc001ixr.1_Missense_Mutation_p.A425T|PARD3_uc001ixt.1_Missense_Mutation_p.A246T|PARD3_uc001ixu.1_Missense_Mutation_p.A381T|PARD3_uc001ixs.1_Missense_Mutation_p.A78T	NM_019619	NP_062565	Q8TEW0	PARD3_HUMAN	partitioning-defective protein 3 homolog	425					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|asymmetric cell division|axonogenesis|cell cycle|establishment of epithelial cell polarity|protein complex assembly|protein targeting to membrane|tight junction assembly	cell cortex|cytoskeleton|cytosol|endomembrane system|tight junction	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|protein binding			ovary(1)	1		Breast(68;0.0707)				GAGGGGTGTGCGCTATGAGGT	0.527													16	39					0	0	0.003163	0	0	
CUL2	8453	broad.mit.edu	37	10	35317808	35317808	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:35317808G>T	uc001ixv.2	-	16	1757	c.1547C>A	c.(1546-1548)GCG>GAG	p.A516E	CUL2_uc009xma.2_Missense_Mutation_p.A385E|CUL2_uc010qer.1_Missense_Mutation_p.A535E|CUL2_uc001ixw.2_Missense_Mutation_p.A516E|CUL2_uc010qes.1_Missense_Mutation_p.A453E	NM_003591	NP_003582	Q13617	CUL2_HUMAN	cullin 2	516					cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex	ubiquitin protein ligase binding			ovary(3)	3						AAGAGGCCACGCACCAGCCTA	0.318													7	17					4.68919e-08	5.00762e-08	0.008291	1	0	
CCNY	219771	broad.mit.edu	37	10	35842076	35842076	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:35842076T>C	uc001iyw.3	+	8	889	c.709T>C	c.(709-711)TAC>CAC	p.Y237H	CCNY_uc001iyu.3_Missense_Mutation_p.Y183H|CCNY_uc001iyv.3_Missense_Mutation_p.Y183H|CCNY_uc001iyx.3_Missense_Mutation_p.Y183H|CCNY_uc009xmb.2_Missense_Mutation_p.Y212H|CCNY_uc010qet.1_Missense_Mutation_p.Y104H	NM_145012	NP_659449	Q8ND76	CCNY_HUMAN	cyclin Y isoform 1	237	Cyclin N-terminal.				cell division|G2/M transition of mitotic cell cycle|positive regulation of cyclin-dependent protein kinase activity|regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasmic cyclin-dependent protein kinase holoenzyme complex|nucleus|plasma membrane	cyclin-dependent protein kinase regulator activity|protein kinase binding				0						GAATGTGGATTACTGCCAGAT	0.527													3	74					0	0	0.004672	0	0	
ANKRD30A	91074	broad.mit.edu	37	10	37442528	37442528	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:37442528A>G	uc001iza.1	+	13	1667	c.1568A>G	c.(1567-1569)GAT>GGT	p.D523G		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	579						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						TCACAGAAGGATGTGTGTTTA	0.294													5	247					0	0	0.000602	0	0	
HSD17B7P2	158160	broad.mit.edu	37	10	38651206	38651206	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:38651206C>T	uc010qex.1	+	3	353	c.278C>T	c.(277-279)GCT>GTT	p.A93V	HSD17B7P2_uc001izq.2_RNA|HSD17B7P2_uc001izo.1_RNA|HSD17B7P2_uc001izp.1_Missense_Mutation_p.A91V					SubName: Full=cDNA FLJ60462, highly similar to 3-keto-steroid reductase (EC 1.1.1.270);												0						TATCTAAATGCTGGGATCATG	0.358													16	67					0	0	0.004007	0	0	
HSD17B7P2	158160	broad.mit.edu	37	10	38651254	38651254	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:38651254G>A	uc010qex.1	+	3	401	c.326G>A	c.(325-327)GGC>GAC	p.G109D	HSD17B7P2_uc001izq.2_RNA|HSD17B7P2_uc001izo.1_RNA|HSD17B7P2_uc001izp.1_Missense_Mutation_p.G107D					SubName: Full=cDNA FLJ60462, highly similar to 3-keto-steroid reductase (EC 1.1.1.270);												0						CTTCTCTTTGGCCTCTTTTCA	0.383													14	50					0	0	0.002450	0	0	
LOC441666	441666	broad.mit.edu	37	10	42832378	42832378	+	RNA	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:42832378C>T	uc010qey.1	-	3		c.1597G>A				NR_024380				Homo sapiens noncoding mRNA sequence.												0						ACAAGCTTTGCCACATTCTTC	0.373													5	13					0	0	0.001168	0	0	
RET	5979	broad.mit.edu	37	10	43606686	43606686	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:43606686C>T	uc001jal.2	+	7	1485	c.1295C>T	c.(1294-1296)GCA>GTA	p.A432V	RET_uc001jak.1_Missense_Mutation_p.A432V|RET_uc010qez.1_Missense_Mutation_p.A178V	NM_020975	NP_066124	P07949	RET_HUMAN	ret proto-oncogene isoform a	432	Extracellular (Potential).		A -> E (in CCHS).		homophilic cell adhesion|positive regulation of metanephric glomerulus development|positive regulation of transcription, DNA-dependent|posterior midgut development	integral to membrane	ATP binding|calcium ion binding|transmembrane receptor protein tyrosine kinase activity			thyroid(404)|adrenal_gland(20)|lung(9)|large_intestine(5)|breast(4)|ovary(4)|central_nervous_system(3)|urinary_tract(1)|NS(1)	451		Ovarian(717;0.0423)			Sunitinib(DB01268)	AACTGCCAGGCATTCAGTGGC	0.592		1	T|Mis|N|F	H4|PRKAR1A|NCOA4|PCM1|GOLGA5|TRIM33|KTN1|TRIM27|HOOK3	medullary thyroid| papillary thyroid|pheochromocytoma	medullary thyroid| papillary thyroid|pheochromocytoma	Hirschsprung disease		Multiple_Endocrine_Neoplasia_type_2B|Multiple_Endocrine_Neoplasia_type_2A|Familial_Medullary_Thyroid_Carcinoma				27	51					0	0	0.008361	0	0	
ZNF485	220992	broad.mit.edu	37	10	44111987	44111987	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:44111987G>A	uc010qfc.1	+	5	690	c.496G>A	c.(496-498)GCC>ACC	p.A166T	ZNF485_uc010qfd.1_Missense_Mutation_p.A75T	NM_145312	NP_660355	Q8NCK3	ZN485_HUMAN	zinc finger protein 485	166	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ATGTGGGATCGCCTTTATGAA	0.398													17	86					0	0	0.006122	0	0	
RASSF4	83937	broad.mit.edu	37	10	45480314	45480314	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:45480314G>A	uc001jbo.2	+	6	561	c.427G>A	c.(427-429)GCC>ACC	p.A143T	RASSF4_uc001jbp.2_Missense_Mutation_p.A174T|RASSF4_uc009xmn.2_Missense_Mutation_p.A73T|RASSF4_uc001jbq.2_Missense_Mutation_p.A40T|RASSF4_uc001jbt.2_Missense_Mutation_p.A100T	NM_032023	NP_114412	Q9H2L5	RASF4_HUMAN	Ras association domain family 4	143					cell cycle|signal transduction		protein binding			large_intestine(1)	1						CAAGAGCGACGCCAGTTGCAT	0.637													9	42					0	0	0.004482	0	0	
RASSF4	83937	broad.mit.edu	37	10	45486467	45486467	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:45486467G>A	uc001jbo.2	+	9	891	c.757G>A	c.(757-759)GCC>ACC	p.A253T	RASSF4_uc001jbp.2_Missense_Mutation_p.A284T|RASSF4_uc009xmn.2_Missense_Mutation_p.A183T|RASSF4_uc001jbq.2_Missense_Mutation_p.A150T|RASSF4_uc001jbt.2_Missense_Mutation_p.A210T	NM_032023	NP_114412	Q9H2L5	RASF4_HUMAN	Ras association domain family 4	253	Ras-associating.				cell cycle|signal transduction		protein binding			large_intestine(1)	1						TGAGAAGATCGCCAGGATCTT	0.522													6	46					0	0	0.001984	0	0	
FAM21C	253725	broad.mit.edu	37	10	46224380	46224380	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:46224380A>G	uc001jcu.2	+	3	296	c.197A>G	c.(196-198)GAC>GGC	p.D66G	FAM21C_uc001jcs.1_Intron|FAM21C_uc001jct.2_Missense_Mutation_p.D66G|FAM21C_uc010qfi.1_Missense_Mutation_p.D66G	NM_015262	NP_056077	A8K5W5	A8K5W5_HUMAN	hypothetical protein LOC253725	66										ovary(1)	1						AAACAAGTGGACGGACTAATC	0.383													20	164					0	0	0.002299	0	0	
GPRIN2	9721	broad.mit.edu	37	10	46999760	46999760	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:46999760G>A	uc001jec.2	+	3	1015	c.880G>A	c.(880-882)GCC>ACC	p.A294T	GPRIN2_uc010qfq.1_Missense_Mutation_p.A57T	NM_014696	NP_055511	O60269	GRIN2_HUMAN	G protein-regulated inducer of neurite outgrowth	294											0						CCATTGCTGTGCCCACCTTTG	0.607													10	82					0	0	0.008291	0	0	
PPYR1	5540	broad.mit.edu	37	10	47086901	47086901	+	Missense_Mutation	SNP	G	A	A	rs148605550	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:47086901G>A	uc001jee.2	+	3	537	c.118G>A	c.(118-120)GTG>ATG	p.V40M	ANXA8_uc001jed.3_Intron|PPYR1_uc009xna.2_Missense_Mutation_p.V40M	NM_005972	NP_005963	P50391	NPY4R_HUMAN	pancreatic polypeptide receptor 1	40	Helical; Name=1; (Potential).				blood circulation|digestion|feeding behavior	integral to plasma membrane				ovary(1)|skin(1)	2						TTCCGTGGACGTGATGGTCTT	0.532													17	124					0	0	0.004990	0	0	
PPYR1	5540	broad.mit.edu	37	10	47087502	47087502	+	Missense_Mutation	SNP	G	A	A	rs139014994		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:47087502G>A	uc001jee.2	+	3	1138	c.719G>A	c.(718-720)CGC>CAC	p.R240H	ANXA8_uc001jed.3_Intron|PPYR1_uc009xna.2_Missense_Mutation_p.R240H	NM_005972	NP_005963	P50391	NPY4R_HUMAN	pancreatic polypeptide receptor 1	240	Cytoplasmic (Potential).				blood circulation|digestion|feeding behavior	integral to plasma membrane				ovary(1)|skin(1)	2						ATCTACCGGCGCCTGCAGAGG	0.607													8	103					0	0	0.008291	0	0	
RBP3	5949	broad.mit.edu	37	10	48389508	48389508	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:48389508G>A	uc001jez.2	-	1	1484	c.1370C>T	c.(1369-1371)GCC>GTC	p.A457V		NM_002900	NP_002891	P10745	RET3_HUMAN	retinol-binding protein 3 precursor	457	4 X approximate tandem repeats.|2.				lipid metabolic process|proteolysis|transport|visual perception	interphotoreceptor matrix	retinal binding|serine-type peptidase activity			large_intestine(1)|central_nervous_system(1)	2					Vitamin A(DB00162)	GACATATGGGGCCAACACACC	0.627													10	15					0	0	0.000978	0	0	
GDF2	2658	broad.mit.edu	37	10	48414241	48414241	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:48414241G>A	uc001jfa.1	-	2	790	c.627C>T	c.(625-627)AGC>AGT	p.S209S		NM_016204	NP_057288	Q9UK05	GDF2_HUMAN	growth differentiation factor 2 precursor	209					activin receptor signaling pathway|BMP signaling pathway|cartilage development|cellular iron ion homeostasis|growth|negative regulation of angiogenesis|negative regulation of blood vessel endothelial cell migration|negative regulation of cell growth|negative regulation of DNA replication|negative regulation of endothelial cell proliferation|ossification|pathway-restricted SMAD protein phosphorylation|patterning of blood vessels|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(2)|skin(1)	3						GCTTCACGGCGCTGGACACTT	0.572													10	29					0	0	0.000978	0	0	
ARHGAP22	58504	broad.mit.edu	37	10	49654532	49654532	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:49654532C>G	uc001jgt.2	-	10	2296	c.1999G>C	c.(1999-2001)GAG>CAG	p.E667Q	ARHGAP22_uc001jgs.2_Missense_Mutation_p.E577Q|ARHGAP22_uc001jgu.2_Missense_Mutation_p.E683Q|ARHGAP22_uc010qgl.1_Missense_Mutation_p.E624Q|ARHGAP22_uc010qgm.1_Missense_Mutation_p.E673Q|ARHGAP22_uc001jgv.2_Missense_Mutation_p.E365Q|ARHGAP22_uc001jgr.2_Missense_Mutation_p.E384Q	NM_021226	NP_067049	Q7Z5H3	RHG22_HUMAN	Rho GTPase activating protein 2	667	Potential.				angiogenesis|cell differentiation|regulation of small GTPase mediated signal transduction|regulation of transcription, DNA-dependent|small GTPase mediated signal transduction|transcription, DNA-dependent	cytosol|nucleus	GTPase activator activity	p.E667Q(1)		ovary(1)	1						TTCCTCCTCTCCGCATCCTCC	0.502													5	87					0	0	0.001984	0	0	
ERCC6	2074	broad.mit.edu	37	10	50701183	50701183	+	Missense_Mutation	SNP	C	T	T	rs138758064	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:50701183C>T	uc001jhs.3	-	8	1955	c.1801G>A	c.(1801-1803)GGT>AGT	p.G601S	ERCC6_uc010qgr.1_Intron|ERCC6_uc001jhr.3_5'UTR	NM_000124	NP_000115	Q03468	ERCC6_HUMAN	excision repair cross-complementing rodent	601	Helicase ATP-binding.				base-excision repair|positive regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair	nucleolus|soluble fraction|transcription elongation factor complex	ATP binding|chromatin binding|DNA binding|DNA-dependent ATPase activity|helicase activity|protein C-terminus binding|protein complex binding|protein N-terminus binding			lung(5)|breast(5)|ovary(3)|large_intestine(2)|skin(1)	16						GTATAGGAACCGGTTTCATGT	0.403								Direct_reversal_of_damage|NER					13	36					0	0	0.001855	0	0	
PGBD3	267004	broad.mit.edu	37	10	50723521	50723521	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:50723521C>T	uc001jht.2	-	2	1895	c.1640G>A	c.(1639-1641)CGT>CAT	p.R547H	ERCC6_uc001jhs.3_Intron|PGBD3_uc009xoe.2_Missense_Mutation_p.R1015H|PGBD3_uc001jhu.2_Missense_Mutation_p.R1015H	NM_170753	NP_736609	Q8N328	PGBD3_HUMAN	hypothetical protein LOC267004	547										pancreas(1)|breast(1)|skin(1)	3						GCCATCATAACGTGAGTCAAT	0.438													26	89					0	0	0.005443	0	0	
SLC18A3	6572	broad.mit.edu	37	10	50819068	50819068	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:50819068G>A	uc001jhw.2	+	1	722	c.282G>A	c.(280-282)ACG>ACA	p.T94T	CHAT_uc001jhv.1_Intron|CHAT_uc001jhx.1_5'Flank|CHAT_uc001jhy.1_5'Flank	NM_003055	NP_003046	Q16572	VACHT_HUMAN	vesicular acetylcholine transporter	94	Lumenal, vesicle (Potential).				neurotransmitter secretion	clathrin sculpted acetylcholine transport vesicle membrane|integral to plasma membrane|membrane fraction	acetylcholine transmembrane transporter activity			ovary(2)	2						GCGCCTACACGGCCAACACCT	0.726													6	12					0	0	0.001984	0	0	
SLC18A3	6572	broad.mit.edu	37	10	50819793	50819793	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:50819793T>C	uc001jhw.2	+	1	1447	c.1007T>C	c.(1006-1008)GTG>GCG	p.V336A	CHAT_uc001jhv.1_Intron|CHAT_uc001jhx.1_5'Flank|CHAT_uc001jhy.1_5'Flank|CHAT_uc001jia.2_5'Flank|CHAT_uc001jhz.2_5'Flank|CHAT_uc010qgs.1_5'Flank	NM_003055	NP_003046	Q16572	VACHT_HUMAN	vesicular acetylcholine transporter	336	Helical; (Potential).				neurotransmitter secretion	clathrin sculpted acetylcholine transport vesicle membrane|integral to plasma membrane|membrane fraction	acetylcholine transmembrane transporter activity			ovary(2)	2						CCGGCCTTCGTGCCTCATGTG	0.667													5	24					0	0	0.006214	0	0	
PARG	8505	broad.mit.edu	37	10	51087787	51087787	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:51087787G>A	uc001jif.2	-	9	2181	c.1920C>T	c.(1918-1920)TGC>TGT	p.C640C	PARG_uc001jih.2_Silent_p.C640C|PARG_uc001jig.2_Silent_p.C226C|PARG_uc010qgv.1_Intron|PARG_uc009xoi.2_Intron|PARG_uc010qgw.1_Silent_p.C531C|PARG_uc009xoj.2_Silent_p.C191C|PARG_uc010qgx.1_Silent_p.C558C	NM_003631	NP_003622	Q86W56	PARG_HUMAN	poly (ADP-ribose) glycohydrolase	640					carbohydrate metabolic process	nucleus	poly(ADP-ribose) glycohydrolase activity			ovary(2)	2				Epithelial(53;0.213)		GTGGAAATGTGCAGAAGAAAG	0.383													3	14					0	0	0.009096	0	0	
Unknown	0	broad.mit.edu	37	10	52390830	52390830	+	RNA	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:52390830G>A	uc001jjf.1	+	2		c.1523G>A								Homo sapiens cDNA FLJ12320 fis, clone MAMMA1002082.																		GCTCGCTTCCGTATCCATATT	0.493													7	10					0	0	0.003080	0	0	
A1CF	29974	broad.mit.edu	37	10	52575861	52575861	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:52575861G>A	uc001jjj.2	-	9	1234	c.1046C>T	c.(1045-1047)GCC>GTC	p.A349V	A1CF_uc010qhn.1_Missense_Mutation_p.A357V|A1CF_uc001jji.2_Missense_Mutation_p.A349V|A1CF_uc001jjh.2_Missense_Mutation_p.A357V|A1CF_uc010qho.1_Missense_Mutation_p.A357V|A1CF_uc009xov.2_Missense_Mutation_p.A349V	NM_138932	NP_620310	Q9NQ94	A1CF_HUMAN	apobec-1 complementation factor isoform 2	349					cytidine to uridine editing|mRNA modification|mRNA processing|protein stabilization	apolipoprotein B mRNA editing enzyme complex|endoplasmic reticulum|nucleoplasm	nucleotide binding|protein binding|single-stranded RNA binding			central_nervous_system(1)	1						GGTCTGGGGGGCATAGAAGAC	0.517													5	61					0	0	0.000602	0	0	
PCDH15	65217	broad.mit.edu	37	10	55582282	55582282	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:55582282G>A	uc001jju.1	-	33	5599	c.5204C>T	c.(5203-5205)GCC>GTC	p.A1735V	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.A1732V|PCDH15_uc010qhw.1_Missense_Mutation_p.A1695V|PCDH15_uc010qhx.1_Missense_Mutation_p.A1666V|PCDH15_uc010qhy.1_Missense_Mutation_p.A1742V|PCDH15_uc010qhz.1_Missense_Mutation_p.A1737V|PCDH15_uc010qia.1_Missense_Mutation_p.A1715V|PCDH15_uc010qib.1_Missense_Mutation_p.A1712V	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1735	Cytoplasmic (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				TGGTGGATGGGCAAAATTTTC	0.254										HNSCC(58;0.16)			8	37					0	0	0.006214	0	0	
ANK3	288	broad.mit.edu	37	10	61844960	61844960	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:61844960G>A	uc001jky.2	-	31	3992	c.3800C>T	c.(3799-3801)ACG>ATG	p.T1267M	ANK3_uc001jkw.2_Missense_Mutation_p.T401M|ANK3_uc009xpa.2_Missense_Mutation_p.T401M|ANK3_uc001jkx.2_Missense_Mutation_p.T445M|ANK3_uc010qih.1_Missense_Mutation_p.T1268M|ANK3_uc001jkz.3_Missense_Mutation_p.T1261M|ANK3_uc001jla.1_Missense_Mutation_p.T333M|ANK3_uc001jlb.1_Missense_Mutation_p.T785M|ANK3_uc001jkv.2_5'Flank	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	1267					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						TTTTATAAACGTCAAAGGAGT	0.403													8	41					0	0	0.004482	0	0	
ANK3	288	broad.mit.edu	37	10	62149329	62149329	+	Translation_Start_Site	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:62149329C>T	uc001jky.2	-	1	160	c.-32G>A	c.(-34--30)CCGTG>CCATG		ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jlb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1						establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						CAAGCACACACGGCTTCCTTG	0.413													15	22					0	0	0.003163	0	0	
ZNF365	22891	broad.mit.edu	37	10	64136647	64136647	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:64136647T>C	uc001jmc.2	+	2	1010	c.695T>C	c.(694-696)CTG>CCG	p.L232P	ZNF365_uc001jly.3_Missense_Mutation_p.L247P|ZNF365_uc001jmb.3_Missense_Mutation_p.L232P|ZNF365_uc001jlz.3_Missense_Mutation_p.L232P|ZNF365_uc001jma.3_Intron	NM_199451	NP_955523	Q70YC4	TALAN_HUMAN	zinc finger protein 365 isoform C	Error:Variant_position_missing_in_Q70YC4_after_alignment										ovary(1)|skin(1)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					ATAGCTGTACTGAGGCAACGC	0.517													10	94					0	0	0.000978	0	0	
EGR2	1959	broad.mit.edu	37	10	64575694	64575694	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:64575694G>A	uc010qim.1	-	2	250	c.96C>T	c.(94-96)GCC>GCT	p.A32A	EGR2_uc010qin.1_5'UTR|EGR2_uc001jmi.2_Silent_p.A32A|EGR2_uc010qio.1_Silent_p.A45A|EGR2_uc009xph.2_Silent_p.A32A	NM_001136177	NP_001129649	P11161	EGR2_HUMAN	early growth response 2 protein isoform a	32					fat cell differentiation|protein export from nucleus|transcription from RNA polymerase II promoter	cytoplasm|nucleus	chromatin binding|RNA polymerase II activating transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|ubiquitin protein ligase binding|zinc ion binding			ovary(2)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					CCGACGTGGCGGCGAGGTCCT	0.587													5	52					0	0	0.001168	0	0	
JMJD1C	221037	broad.mit.edu	37	10	64979728	64979728	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:64979728G>A	uc001jmn.2	-	4	763	c.463C>T	c.(463-465)CTA>TTA	p.L155L	JMJD1C_uc001jml.2_Intron|JMJD1C_uc001jmm.2_5'UTR|JMJD1C_uc010qiq.1_5'UTR|JMJD1C_uc009xpi.2_5'UTR|JMJD1C_uc009xpj.1_Intron|JMJD1C_uc001jmp.1_Intron	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	155					blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)					ACTGGGTTTAGGCTGTCTATG	0.413													22	85					0	0	0.002299	0	0	
TET1	80312	broad.mit.edu	37	10	70446141	70446141	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:70446141G>A	uc001jok.3	+	11	5586	c.5081G>A	c.(5080-5082)CGC>CAC	p.R1694H		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	1694					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						GAAGATAACCGCTCTTTGGGT	0.438													11	47					0	0	0.001368	0	0	
STOX1	219736	broad.mit.edu	37	10	70644170	70644170	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:70644170G>A	uc001jos.2	+	3	705	c.618G>A	c.(616-618)CTG>CTA	p.L206L	STOX1_uc001jor.2_Silent_p.L206L|STOX1_uc009xpy.2_Intron|STOX1_uc001joq.2_Silent_p.L96L	NM_001130161	NP_001123633	Q6ZVD7	STOX1_HUMAN	storkhead box 1 isoform a	206						cytoplasm|nucleolus	DNA binding			kidney(1)|skin(1)	2						AGAGAATGCTGCCATCAGATG	0.453													29	81					0	0	0.002096	0	0	
STOX1	219736	broad.mit.edu	37	10	70644504	70644504	+	Missense_Mutation	SNP	C	T	T	rs149218532	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:70644504C>T	uc001jos.2	+	3	1039	c.952C>T	c.(952-954)CGC>TGC	p.R318C	STOX1_uc001jor.2_Intron|STOX1_uc009xpy.2_Intron|STOX1_uc001joq.2_Missense_Mutation_p.R208C	NM_001130161	NP_001123633	Q6ZVD7	STOX1_HUMAN	storkhead box 1 isoform a	318						cytoplasm|nucleolus	DNA binding			kidney(1)|skin(1)	2						TCTCTTATGGCGCAGCTTATC	0.453													7	101					0	0	0.001984	0	0	
HKDC1	80201	broad.mit.edu	37	10	71017128	71017128	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:71017128A>G	uc001jpf.3	+	14	2111	c.1978A>G	c.(1978-1980)ACC>GCC	p.T660A	HKDC1_uc010qje.1_Missense_Mutation_p.T523A|HKDC1_uc009xqb.2_RNA	NM_025130	NP_079406	Q2TB90	HKDC1_HUMAN	hexokinase domain containing 1	660					glycolysis	mitochondrion|nucleus	ATP binding|hexokinase activity			ovary(4)|skin(1)	5						TACAGTGGGGACCATGATGAC	0.423													10	127					0	0	0.001855	0	0	
TSPAN15	23555	broad.mit.edu	37	10	71265925	71265925	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:71265925G>A	uc001jpo.1	+	7	789	c.664G>A	c.(664-666)GCC>ACC	p.A222T		NM_012339	NP_036471	O95858	TSN15_HUMAN	transmembrane 4 superfamily member 15	222	Extracellular (Potential).					integral to plasma membrane|membrane fraction					0						CTGCACCAACGCCGTGATCAT	0.612													21	69					0	0	0.003330	0	0	
NODAL	4838	broad.mit.edu	37	10	72195099	72195099	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:72195099G>A	uc001jrc.2	-	2	876	c.834C>T	c.(832-834)GGC>GGT	p.G278G		NM_018055	NP_060525	Q96S42	NODAL_HUMAN	nodal precursor	278					growth	extracellular space	cytokine activity|growth factor activity			large_intestine(1)|kidney(1)	2						TAGGACACTCGCCCTCACAGC	0.572													7	25					0	0	0.003080	0	0	
CCDC109A	90550	broad.mit.edu	37	10	74628488	74628488	+	Missense_Mutation	SNP	C	T	T	rs140182415		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:74628488C>T	uc001jtc.2	+	5	545	c.524C>T	c.(523-525)ACG>ATG	p.T175M	CCDC109A_uc009xqp.1_RNA|CCDC109A_uc009xqq.1_RNA|CCDC109A_uc010qjy.1_RNA|CCDC109A_uc009xqr.2_Intron|CCDC109A_uc001jtd.2_Missense_Mutation_p.T126M	NM_138357	NP_612366	Q8NE86	MCU_HUMAN	coiled-coil domain containing 109A	175	Mitochondrial matrix (Potential).				elevation of mitochondrial calcium ion concentration|mitochondrial calcium ion transport|protein complex oligomerization	integral to membrane|mitochondrial inner membrane	protein binding				0	Prostate(51;0.0198)					AATGCAGCAACGCTGAATGAT	0.383													17	82					0	0	0.006122	0	0	
CCDC109A	90550	broad.mit.edu	37	10	74631233	74631233	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:74631233G>A	uc001jtc.2	+	6	777	c.756G>A	c.(754-756)CGG>CGA	p.R252R	CCDC109A_uc009xqp.1_RNA|CCDC109A_uc009xqq.1_RNA|CCDC109A_uc010qjy.1_RNA|CCDC109A_uc009xqr.2_Silent_p.R231R|CCDC109A_uc001jtd.2_Silent_p.R203R	NM_138357	NP_612366	Q8NE86	MCU_HUMAN	coiled-coil domain containing 109A	252	Helical; (Potential).				elevation of mitochondrial calcium ion concentration|mitochondrial calcium ion transport|protein complex oligomerization	integral to membrane|mitochondrial inner membrane	protein binding				0	Prostate(51;0.0198)					TTTTGGCCCGGCTTACCTGGT	0.468													42	104					0	0	0.008740	0	0	
ECD	11319	broad.mit.edu	37	10	74899444	74899444	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:74899444T>C	uc001jtn.2	-	10	1422	c.1179A>G	c.(1177-1179)ATA>ATG	p.I393M	ECD_uc009xqx.2_Missense_Mutation_p.I426M|ECD_uc009xqy.2_Missense_Mutation_p.I350M|ECD_uc001jto.2_Missense_Mutation_p.I92M	NM_007265	NP_009196	O95905	SGT1_HUMAN	suppressor of S. cerevisiae gcr2 isoform 1	393					regulation of glycolysis|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	transcription coactivator activity			pancreas(1)	1	Prostate(51;0.0119)					TATCAAATGGTATTGTCTGTA	0.343													20	259					0	0	0.010504	0	0	
ECD	11319	broad.mit.edu	37	10	74916042	74916042	+	Missense_Mutation	SNP	C	T	T	rs149473721		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:74916042C>T	uc001jtn.2	-	5	824	c.581G>A	c.(580-582)CGC>CAC	p.R194H	ECD_uc009xqx.2_Missense_Mutation_p.R194H|ECD_uc009xqy.2_Missense_Mutation_p.R194H|ECD_uc001jto.2_5'UTR	NM_007265	NP_009196	O95905	SGT1_HUMAN	suppressor of S. cerevisiae gcr2 isoform 1	194					regulation of glycolysis|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	transcription coactivator activity			pancreas(1)	1	Prostate(51;0.0119)					CCCTCTGATGCGCCTATTCAC	0.368													5	81					0	0	0.001168	0	0	
TTC18	118491	broad.mit.edu	37	10	75071669	75071669	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:75071669C>T	uc009xrc.2	-	12	1418	c.1297G>A	c.(1297-1299)GCA>ACA	p.A433T	TTC18_uc001jty.2_Missense_Mutation_p.A433T|TTC18_uc009xrd.1_Missense_Mutation_p.A241T	NM_145170	NP_660153	Q5T0N1	TTC18_HUMAN	tetratricopeptide repeat domain 18	433							binding			ovary(2)|central_nervous_system(1)	3	Prostate(51;0.0119)					ATACTAGGTGCCTGCTGAAAG	0.393													8	107					0	0	0.004482	0	0	
USP54	159195	broad.mit.edu	37	10	75290490	75290490	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:75290490C>T	uc001juo.2	-	11	1436	c.1419G>A	c.(1417-1419)GAG>GAA	p.E473E	USP54_uc001juk.2_5'UTR|USP54_uc001jul.2_5'UTR|USP54_uc001jum.2_RNA|USP54_uc001jun.2_RNA|USP54_uc001jup.2_Silent_p.E473E|USP54_uc010qkl.1_Silent_p.E473E	NM_152586	NP_689799	Q70EL1	UBP54_HUMAN	ubiquitin specific peptidase 54	473					ubiquitin-dependent protein catabolic process		protein binding|ubiquitin thiolesterase activity			breast(3)|lung(2)|kidney(1)	6	Prostate(51;0.0112)					AGGCCTGGGGCTCATCGCCTT	0.498													24	54					0	0	0.005443	0	0	
KCNMA1	3778	broad.mit.edu	37	10	78647147	78647147	+	Silent	SNP	C	T	T	rs75138661		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:78647147C>T	uc001jxn.2	-	28	3765	c.3588G>A	c.(3586-3588)TCG>TCA	p.S1196S	KCNMA1_uc001jxj.2_Silent_p.S1142S|KCNMA1_uc001jxk.1_Silent_p.S814S|KCNMA1_uc009xrt.1_Silent_p.S987S|KCNMA1_uc001jxl.1_Silent_p.S821S|KCNMA1_uc001jxo.2_Silent_p.S1179S|KCNMA1_uc001jxm.2_Silent_p.S1138S|KCNMA1_uc001jxq.2_Silent_p.S1168S|uc001jxp.2_5'Flank	NM_001161352	NP_001154824	Q12791	KCMA1_HUMAN	large conductance calcium-activated potassium	1196	Cytoplasmic (Potential).				cellular potassium ion homeostasis|negative regulation of cell volume|platelet activation|positive regulation of apoptosis|regulation of membrane potential|response to calcium ion|response to carbon monoxide|response to hypoxia|response to osmotic stress|smooth muscle contraction involved in micturition	apical plasma membrane|caveola|integral to membrane|voltage-gated potassium channel complex	actin binding|calcium-activated potassium channel activity|large conductance calcium-activated potassium channel activity|metal ion binding|voltage-gated potassium channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Chlorzoxazone(DB00356)|Cromoglicate(DB01003)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Enflurane(DB00228)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Trichlormethiazide(DB01021)	TGGAGGACTGCGACGAGTGGG	0.582													12	45					0	0	0.004007	0	0	
KCNMA1	3778	broad.mit.edu	37	10	78709065	78709065	+	Silent	SNP	G	A	A	rs139475681		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:78709065G>A	uc001jxn.2	-	22	2721	c.2544C>T	c.(2542-2544)GGC>GGT	p.G848G	KCNMA1_uc001jxj.2_Silent_p.G794G|KCNMA1_uc001jxk.1_Silent_p.G466G|KCNMA1_uc009xrt.1_Silent_p.G639G|KCNMA1_uc001jxl.1_Silent_p.G473G|KCNMA1_uc001jxo.2_Silent_p.G831G|KCNMA1_uc001jxm.2_Silent_p.G790G|KCNMA1_uc001jxq.2_Silent_p.G793G	NM_001161352	NP_001154824	Q12791	KCMA1_HUMAN	large conductance calcium-activated potassium	848	Segment S9.|Cytoplasmic (Potential).				cellular potassium ion homeostasis|negative regulation of cell volume|platelet activation|positive regulation of apoptosis|regulation of membrane potential|response to calcium ion|response to carbon monoxide|response to hypoxia|response to osmotic stress|smooth muscle contraction involved in micturition	apical plasma membrane|caveola|integral to membrane|voltage-gated potassium channel complex	actin binding|calcium-activated potassium channel activity|large conductance calcium-activated potassium channel activity|metal ion binding|voltage-gated potassium channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Chlorzoxazone(DB00356)|Cromoglicate(DB01003)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Enflurane(DB00228)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Trichlormethiazide(DB01021)	AGCTGACGTCGCCAAAGATGC	0.552													7	24					0	0	0.003080	0	0	
DLG5	9231	broad.mit.edu	37	10	79554687	79554687	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:79554687C>T	uc001jzk.2	-	30	5536	c.5466G>A	c.(5464-5466)CCG>CCA	p.P1822P	DLG5_uc001jzi.2_Silent_p.P577P|DLG5_uc001jzj.2_Silent_p.P1237P	NM_004747	NP_004738	Q8TDM6	DLG5_HUMAN	discs large homolog 5	1822	Guanylate kinase-like.				cell-cell adhesion|intracellular signal transduction|negative regulation of cell proliferation|regulation of apoptosis	cell junction|cytoplasm	beta-catenin binding|cytoskeletal protein binding|receptor signaling complex scaffold activity			ovary(5)|breast(3)	8	all_cancers(46;0.0316)|all_epithelial(25;0.00147)|Breast(12;0.0015)|Prostate(51;0.0146)		Epithelial(14;0.00105)|OV - Ovarian serous cystadenocarcinoma(4;0.00151)|all cancers(16;0.00446)			CAATAGCGTGCGGAGCAATGT	0.622													11	19					0	0	0.002450	0	0	
NRG3	10718	broad.mit.edu	37	10	83635649	83635649	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:83635649C>T	uc001kco.2	+	1	580	c.553C>T	c.(553-555)CGG>TGG	p.R185W	NRG3_uc010qlz.1_Missense_Mutation_p.R185W|NRG3_uc001kcp.2_5'Flank|NRG3_uc001kcq.2_5'Flank	NM_001010848	NP_001010848	P56975	NRG3_HUMAN	neuregulin 3 isoform 1	185	Ser/Thr-rich.|Extracellular (Potential).				regulation of cell growth	extracellular region|integral to plasma membrane	growth factor activity|receptor tyrosine kinase binding|transmembrane receptor protein tyrosine kinase activator activity	p.R185W(1)		lung(5)|breast(1)	6				GBM - Glioblastoma multiforme(1;2.5e-18)|all cancers(1;2.85e-09)		CACCACAGCACGGAACACTGC	0.706													7	23					0	0	0.006214	0	0	
NRG3	10718	broad.mit.edu	37	10	84745044	84745044	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:84745044A>G	uc001kco.2	+	9	1801	c.1774A>G	c.(1774-1776)ATT>GTT	p.I592V	NRG3_uc010qlz.1_Missense_Mutation_p.I591V|NRG3_uc001kcp.2_Missense_Mutation_p.I395V|NRG3_uc001kcq.2_Missense_Mutation_p.I242V|NRG3_uc001kcr.2_Missense_Mutation_p.I266V	NM_001010848	NP_001010848	P56975	NRG3_HUMAN	neuregulin 3 isoform 1	616	Cytoplasmic (Potential).				regulation of cell growth	extracellular region|integral to plasma membrane	growth factor activity|receptor tyrosine kinase binding|transmembrane receptor protein tyrosine kinase activator activity			lung(5)|breast(1)	6				GBM - Glioblastoma multiforme(1;2.5e-18)|all cancers(1;2.85e-09)		AATGCCAGGGATTTCTGAAGT	0.468													31	82					0	0	0.002096	0	0	
LRIT1	26103	broad.mit.edu	37	10	86001151	86001151	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:86001151C>T	uc001kcz.1	-	1	67	c.45G>A	c.(43-45)TGG>TGA	p.W15*		NM_015613	NP_056428	Q9P2V4	LRIT1_HUMAN	retina specific protein PAL	15						integral to endoplasmic reticulum membrane					0						CCTGGGGGGGCCACGCAAGGG	0.672													5	3					0	0	0.000602	0	0	
OPN4	94233	broad.mit.edu	37	10	88416037	88416037	+	Silent	SNP	G	A	A	rs150600156		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:88416037G>A	uc001kdq.2	+	2	497	c.270G>A	c.(268-270)ACG>ACA	p.T90T	OPN4_uc001kdp.2_Silent_p.T90T|OPN4_uc010qmk.1_Silent_p.T90T	NM_033282	NP_150598	Q9UHM6	OPN4_HUMAN	opsin 4 isoform 1	90	Helical; Name=1; (Potential).				phototransduction|protein-chromophore linkage|regulation of circadian rhythm|rhythmic process|visual perception	integral to membrane|plasma membrane	11-cis retinal binding|G-protein coupled photoreceptor activity			ovary(1)	1						GCAACCTGACGGTCATCTATA	0.602													4	52					0	0	0.000602	0	0	
PTEN	5728	broad.mit.edu	37	10	89717713	89717713	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:89717713G>A	uc001kfb.2	+	8	1769	c.738G>A	c.(736-738)CCG>CCA	p.P246P		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	246	C2 tensin-type.		P -> L (in CD and BZS).		activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.P246L(6)|p.R55fs*1(4)|p.P246fs*10(3)|p.L247fs*10(2)|p.N212fs*1(2)|p.Y27fs*1(2)|p.L247fs*11(1)|p.L247fs*12(1)|p.G165_*404del(1)|p.?(1)|p.F243fs*9(1)|p.L247fs*8(1)|p.P246fs*11(1)|p.P246_L247insGP(1)|p.G165_K342del(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		TCCCTCAGCCGTTACCTGTGT	0.413		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			22	60					0	0	0.003954	0	0	
LIPJ	142910	broad.mit.edu	37	10	90354523	90354523	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:90354523T>C	uc001kff.2	+	6	743	c.429T>C	c.(427-429)GGT>GGC	p.G143G		NM_001010939	NP_001010939	Q5W064	LIPJ_HUMAN	lipase, family member J	143					lipid catabolic process		hydrolase activity			ovary(1)	1		all_cancers(4;2.79e-10)|Prostate(4;1.68e-15)|all_epithelial(4;1.43e-09)|Colorectal(252;0.0381)|Breast(4;0.141)|Melanoma(5;0.2)|all_hematologic(4;0.222)		Colorectal(12;1.02e-05)|COAD - Colon adenocarcinoma(12;1.54e-05)		ATTCACAGGGTACTACTATTG	0.348													10	51					0	0	0.000978	0	0	
PCGF5	84333	broad.mit.edu	37	10	93024260	93024260	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:93024260C>T	uc001khh.2	+	8	893	c.646C>T	c.(646-648)CGA>TGA	p.R216*	PCGF5_uc010qnk.1_Nonsense_Mutation_p.R216*|PCGF5_uc001khi.2_Nonsense_Mutation_p.R216*	NM_032373	NP_115749	Q86SE9	PCGF5_HUMAN	polycomb group ring finger 5	216					regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|PcG protein complex	zinc ion binding			lung(1)	1						GACAAGATGGCGACTAAGAGG	0.294													31	79					0	0	0.003271	0	0	
TNKS2	80351	broad.mit.edu	37	10	93600363	93600363	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:93600363C>T	uc001khp.2	+	14	1870	c.1573C>T	c.(1573-1575)CGT>TGT	p.R525C		NM_025235	NP_079511	Q9H2K2	TNKS2_HUMAN	tankyrase, TRF1-interacting ankyrin-related	525	ANK 10.				positive regulation of canonical Wnt receptor signaling pathway|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein polyubiquitination|Wnt receptor signaling pathway	Golgi membrane|microsome|nuclear envelope|pericentriolar material|perinuclear region of cytoplasm	NAD+ ADP-ribosyltransferase activity|protein binding			kidney(3)|skin(3)|ovary(1)|lung(1)	8		Colorectal(252;0.162)				CATTGAAGGGCGTCAGTCTAC	0.418													29	101					0	0	0.009535	0	0	
BTAF1	9044	broad.mit.edu	37	10	93726433	93726433	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:93726433G>A	uc001khr.2	+	14	1667	c.1569G>A	c.(1567-1569)TGG>TGA	p.W523*	BTAF1_uc001khs.1_Nonsense_Mutation_p.W193*|BTAF1_uc001kht.1_5'UTR	NM_003972	NP_003963	O14981	BTAF1_HUMAN	BTAF1 RNA polymerase II, B-TFIID transcription	523	HEAT 3.				negative regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.0846)				CACGTGTCTGGCCTTTTTTGC	0.348													23	76					0	0	0.002780	0	0	
MYOF	26509	broad.mit.edu	37	10	95119595	95119595	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:95119595C>T	uc001kin.2	-	29	3238	c.3115G>A	c.(3115-3117)GCA>ACA	p.A1039T	MYOF_uc001kio.2_Missense_Mutation_p.A1026T|MYOF_uc009xue.2_RNA	NM_013451	NP_038479	Q9NZM1	MYOF_HUMAN	myoferlin isoform a	1039	Cytoplasmic (Potential).				blood circulation|muscle contraction|plasma membrane repair	caveola|cytoplasmic vesicle membrane|integral to membrane|nuclear membrane	phospholipid binding|protein binding			ovary(3)|breast(1)	4						CTTACCCTTGCGGTGCTTGAA	0.498													31	76					0	0	0.009535	0	0	
PDE6C	5146	broad.mit.edu	37	10	95399901	95399901	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:95399901C>T	uc001kiu.3	+	12	1695	c.1557C>T	c.(1555-1557)CAC>CAT	p.H519H		NM_006204	NP_006195	P51160	PDE6C_HUMAN	phosphodiesterase 6C	519					visual perception	plasma membrane	3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|metal ion binding			ovary(2)|kidney(1)|skin(1)	4		Colorectal(252;0.123)				TTACAGAGCACGGATTGATTA	0.408													5	112					0	0	0.001168	0	0	
PLCE1	51196	broad.mit.edu	37	10	96005833	96005833	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:96005833C>T	uc001kjk.2	+	8	3185	c.2551C>T	c.(2551-2553)CTG>TTG	p.L851L	PLCE1_uc010qnx.1_Silent_p.L851L|PLCE1_uc001kjm.2_Silent_p.L543L	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	851					activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				TTGGTACGTGCTGTCCATCCA	0.562													12	21					0	0	0.001368	0	0	
CYP2C18	1562	broad.mit.edu	37	10	96447543	96447543	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:96447543G>A	uc001kjv.3	+	2	511	c.185G>A	c.(184-186)GGC>GAC	p.G62D	CYP2C18_uc001kjw.3_Missense_Mutation_p.G62D|CYP2C19_uc009xus.1_5'Flank|CYP2C19_uc010qny.1_5'Flank	NM_000772	NP_000763	P33260	CP2CI_HUMAN	cytochrome P450 family 2 subfamily C polypeptide	62					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(3)|lung(1)|skin(1)	5		Colorectal(252;0.09)		all cancers(201;2.8e-06)|KIRC - Kidney renal clear cell carcinoma(50;0.0646)|Kidney(138;0.0805)		AAAGTCTATGGCCCTGTGTTC	0.403													27	113					0	0	0.007291	0	0	
CYP2C18	1562	broad.mit.edu	37	10	96495057	96495057	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:96495057G>T	uc001kjv.3	+	9	1655	c.1329G>T	c.(1327-1329)ATG>ATT	p.M443I	CYP2C18_uc001kjw.3_Missense_Mutation_p.M384I|CYP2C19_uc009xus.1_Intron|CYP2C19_uc010qny.1_Intron	NM_000772	NP_000763	P33260	CP2CI_HUMAN	cytochrome P450 family 2 subfamily C polypeptide	443					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(3)|lung(1)|skin(1)	5		Colorectal(252;0.09)		all cancers(201;2.8e-06)|KIRC - Kidney renal clear cell carcinoma(50;0.0646)|Kidney(138;0.0805)		TGGCCCGCATGGAGCTGTTTT	0.443													26	79					2.48779e-11	2.68585e-11	0.005443	1	0	
CYP2C19	1557	broad.mit.edu	37	10	96540303	96540303	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:96540303G>A	uc010qnz.1	+	4	529	c.529G>A	c.(529-531)GTG>ATG	p.V177M	CYP2C19_uc009xus.1_Missense_Mutation_p.V42M|CYP2C19_uc010qny.1_Missense_Mutation_p.V155M	NM_000769	NP_000760	P33261	CP2CJ_HUMAN	cytochrome P450, family 2, subfamily C,	177					exogenous drug catabolic process|heterocycle metabolic process|monoterpenoid metabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	(S)-limonene 6-monooxygenase activity|(S)-limonene 7-monooxygenase activity|4-hydroxyacetophenone monooxygenase activity|electron carrier activity|enzyme binding|heme binding|oxygen binding|steroid hydroxylase activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Colorectal(252;0.09)		all cancers(201;6.02e-07)|KIRC - Kidney renal clear cell carcinoma(50;0.0672)|Kidney(138;0.0838)	Adinazolam(DB00546)|Aminophenazone(DB01424)|Amitriptyline(DB00321)|Amoxicillin(DB01060)|Arformoterol(DB01274)|Bortezomib(DB00188)|Carisoprodol(DB00395)|Chlorzoxazone(DB00356)|Cilostazol(DB01166)|Citalopram(DB00215)|Clarithromycin(DB01211)|Clobazam(DB00349)|Desipramine(DB01151)|Desloratadine(DB00967)|Diclofenac(DB00586)|Diltiazem(DB00343)|Efavirenz(DB00625)|Esomeprazole(DB00736)|Famotidine(DB00927)|Felbamate(DB00949)|Finasteride(DB01216)|Flunitrazepam(DB01544)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Fosphenytoin(DB01320)|Guanfacine(DB01018)|Imipramine(DB00458)|Indomethacin(DB00328)|Ketoconazole(DB01026)|Lansoprazole(DB00448)|Lapatinib(DB01259)|Loratadine(DB00455)|Melatonin(DB01065)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Moclobemide(DB01171)|Modafinil(DB00745)|Nelfinavir(DB00220)|Nicardipine(DB00622)|Nilutamide(DB00665)|Norgestrel(DB00506)|Omeprazole(DB00338)|Oxcarbazepine(DB00776)|Pantoprazole(DB00213)|Pentamidine(DB00738)|Phenobarbital(DB01174)|Phenytoin(DB00252)|Primidone(DB00794)|Progesterone(DB00396)|Proguanil(DB01131)|Promazine(DB00420)|Quinidine(DB00908)|Rabeprazole(DB01129)|Ranitidine(DB00863)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Temazepam(DB00231)|Teniposide(DB00444)|Terfenadine(DB00342)|Thalidomide(DB01041)|Thioridazine(DB00679)|Ticlopidine(DB00208)|Tolbutamide(DB01124)|Topiramate(DB00273)|Tranylcypromine(DB00752)|Troglitazone(DB00197)|Troleandomycin(DB01361)|Voriconazole(DB00582)	TCCCTGCAATGTGATCTGCTC	0.348													8	127					0	0	0.006214	0	0	
CYP2C19	1557	broad.mit.edu	37	10	96602642	96602642	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:96602642C>A	uc010qnz.1	+	7	1010	c.1010C>A	c.(1009-1011)CCC>CAC	p.P337H	CYP2C19_uc010qny.1_Missense_Mutation_p.P315H	NM_000769	NP_000760	P33261	CP2CJ_HUMAN	cytochrome P450, family 2, subfamily C,	337					exogenous drug catabolic process|heterocycle metabolic process|monoterpenoid metabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	(S)-limonene 6-monooxygenase activity|(S)-limonene 7-monooxygenase activity|4-hydroxyacetophenone monooxygenase activity|electron carrier activity|enzyme binding|heme binding|oxygen binding|steroid hydroxylase activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Colorectal(252;0.09)		all cancers(201;6.02e-07)|KIRC - Kidney renal clear cell carcinoma(50;0.0672)|Kidney(138;0.0838)	Adinazolam(DB00546)|Aminophenazone(DB01424)|Amitriptyline(DB00321)|Amoxicillin(DB01060)|Arformoterol(DB01274)|Bortezomib(DB00188)|Carisoprodol(DB00395)|Chlorzoxazone(DB00356)|Cilostazol(DB01166)|Citalopram(DB00215)|Clarithromycin(DB01211)|Clobazam(DB00349)|Desipramine(DB01151)|Desloratadine(DB00967)|Diclofenac(DB00586)|Diltiazem(DB00343)|Efavirenz(DB00625)|Esomeprazole(DB00736)|Famotidine(DB00927)|Felbamate(DB00949)|Finasteride(DB01216)|Flunitrazepam(DB01544)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Fosphenytoin(DB01320)|Guanfacine(DB01018)|Imipramine(DB00458)|Indomethacin(DB00328)|Ketoconazole(DB01026)|Lansoprazole(DB00448)|Lapatinib(DB01259)|Loratadine(DB00455)|Melatonin(DB01065)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Moclobemide(DB01171)|Modafinil(DB00745)|Nelfinavir(DB00220)|Nicardipine(DB00622)|Nilutamide(DB00665)|Norgestrel(DB00506)|Omeprazole(DB00338)|Oxcarbazepine(DB00776)|Pantoprazole(DB00213)|Pentamidine(DB00738)|Phenobarbital(DB01174)|Phenytoin(DB00252)|Primidone(DB00794)|Progesterone(DB00396)|Proguanil(DB01131)|Promazine(DB00420)|Quinidine(DB00908)|Rabeprazole(DB01129)|Ranitidine(DB00863)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Temazepam(DB00231)|Teniposide(DB00444)|Terfenadine(DB00342)|Thalidomide(DB01041)|Thioridazine(DB00679)|Ticlopidine(DB00208)|Tolbutamide(DB01124)|Topiramate(DB00273)|Tranylcypromine(DB00752)|Troglitazone(DB00197)|Troleandomycin(DB01361)|Voriconazole(DB00582)	AACCGGAGCCCCTGCATGCAG	0.532													27	70					6.00712e-18	6.56958e-18	0.002445	1	0	
ALDH18A1	5832	broad.mit.edu	37	10	97371048	97371048	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:97371048C>T	uc001kkz.2	-	16	2317	c.2075G>A	c.(2074-2076)GGC>GAC	p.G692D	ALDH18A1_uc001kky.2_Missense_Mutation_p.G690D|ALDH18A1_uc010qog.1_Missense_Mutation_p.G581D|ALDH18A1_uc010qoh.1_Missense_Mutation_p.G480D	NM_002860	NP_002851	P54886	P5CS_HUMAN	pyrroline-5-carboxylate synthetase isoform 1	692	Gamma-glutamyl phosphate reductase.				proline biosynthetic process	mitochondrial inner membrane	ATP binding|glutamate 5-kinase activity|glutamate-5-semialdehyde dehydrogenase activity			pancreas(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.0402)		Epithelial(162;9.1e-07)|all cancers(201;2.55e-05)	L-Glutamic Acid(DB00142)	GTGGGAGCTGCCATACTTGTG	0.512													10	120					0	0	0.001368	0	0	
ENTPD1	953	broad.mit.edu	37	10	97605259	97605259	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:97605259G>A	uc001klh.3	+	6	1043	c.719G>A	c.(718-720)CGC>CAC	p.R240H	ENTPD1_uc001kle.1_Missense_Mutation_p.R247H|ENTPD1_uc001kli.3_Missense_Mutation_p.R247H|uc001klg.1_Intron|ENTPD1_uc010qoj.1_Missense_Mutation_p.R252H|ENTPD1_uc010qok.1_Missense_Mutation_p.R132H|ENTPD1_uc010qol.1_Missense_Mutation_p.R132H|ENTPD1_uc010qom.1_Missense_Mutation_p.R240H|ENTPD1_uc010qon.1_Missense_Mutation_p.R102H|ENTPD1_uc009xva.2_Missense_Mutation_p.R102H|ENTPD1_uc009xuz.2_RNA	NM_001776	NP_001767	P49961	ENTP1_HUMAN	ectonucleoside triphosphate diphosphohydrolase 1	240	Extracellular (Potential).				cell adhesion	integral to plasma membrane	ATP binding			ovary(3)	3		Colorectal(252;0.0821)		Epithelial(162;1.31e-07)|all cancers(201;5.33e-06)		CTGCAATTTCGCCTCTATGGC	0.488													10	143					0	0	0.001368	0	0	
CCNJ	54619	broad.mit.edu	37	10	97816981	97816981	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:97816981G>A	uc001klm.2	+	5	1043	c.684G>A	c.(682-684)GTG>GTA	p.V228V	uc001klg.1_Intron|uc001klj.1_Intron|uc009xvb.1_Intron|CCNJ_uc010qoq.1_Silent_p.V239V|CCNJ_uc001kln.2_Silent_p.V227V	NM_019084	NP_061957	Q5T5M9	CCNJ_HUMAN	cyclin J isoform 2	228						nucleus				ovary(1)	1				Epithelial(162;6.1e-08)|all cancers(201;2.32e-06)		ATTTCTTAGTGCAGTGTATTG	0.413													23	91					0	0	0.003954	0	0	
TLL2	7093	broad.mit.edu	37	10	98138803	98138803	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:98138803G>A	uc001kml.1	-	17	2467	c.2241C>T	c.(2239-2241)TGC>TGT	p.C747C		NM_012465	NP_036597	Q9Y6L7	TLL2_HUMAN	tolloid-like 2 precursor	747	EGF-like 2; calcium-binding (Potential).				cell differentiation|multicellular organismal development|proteolysis	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3		Colorectal(252;0.0846)		Epithelial(162;1.51e-07)|all cancers(201;7.59e-06)		AGGTGTTGACGCACTCATGCT	0.502													13	49					0	0	0.004007	0	0	
C10orf12	26148	broad.mit.edu	37	10	98742563	98742563	+	Nonsense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:98742563C>A	uc001kmv.2	+	1	1523	c.1416C>A	c.(1414-1416)TGC>TGA	p.C472*	C10orf12_uc009xvg.1_Nonsense_Mutation_p.C782*	NM_015652	NP_056467	Q8N655	CJ012_HUMAN	hypothetical protein LOC26148	472										skin(2)	2		Colorectal(252;0.172)		Epithelial(162;6.35e-09)|all cancers(201;3.21e-07)		ATGTAAAATGCCTGTCAGAAA	0.418													46	154					2.24722e-20	2.46176e-20	0.003610	1	0	
ARHGAP19	84986	broad.mit.edu	37	10	99019239	99019239	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:99019239C>T	uc001knb.2	-	5	789	c.760G>A	c.(760-762)GCA>ACA	p.A254T	ARHGAP19_uc001kmy.2_RNA|ARHGAP19_uc001kna.2_Missense_Mutation_p.A245T|ARHGAP19_uc009xvi.2_RNA|ARHGAP19_uc009xvj.2_Missense_Mutation_p.A254T|ARHGAP19_uc009xvk.2_Missense_Mutation_p.A48T	NM_032900	NP_116289	Q14CB8	RHG19_HUMAN	Rho GTPase activating protein 19	254	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|nucleus	GTPase activator activity				0		Colorectal(252;0.0854)		Epithelial(162;7.65e-09)|all cancers(201;4.49e-07)		TGTTTCTTTGCTGTCTGGTAT	0.458													8	135					0	0	0.004482	0	0	
RRP12	23223	broad.mit.edu	37	10	99120319	99120319	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:99120319T>C	uc001knf.2	-	31	3763	c.3624A>G	c.(3622-3624)ATA>ATG	p.I1208M	RRP12_uc001kne.2_Missense_Mutation_p.I223M|RRP12_uc009xvl.2_Missense_Mutation_p.I325M|RRP12_uc009xvm.2_Missense_Mutation_p.I926M|RRP12_uc010qou.1_Missense_Mutation_p.I1147M|RRP12_uc009xvn.2_Missense_Mutation_p.I1108M	NM_015179	NP_055994	Q5JTH9	RRP12_HUMAN	ribosomal RNA processing 12 homolog isoform 1	1208						integral to membrane|nuclear membrane|nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3		Colorectal(252;0.162)		Epithelial(162;2.72e-09)|all cancers(201;1.76e-07)		ACTGAGGGGGTATCTCCAGCT	0.552													4	60					0	0	0.000602	0	0	
EXOSC1	51013	broad.mit.edu	37	10	99200984	99200984	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:99200984T>C	uc001kni.2	-	4	281	c.255A>G	c.(253-255)GTA>GTG	p.V85V	EXOSC1_uc009xvp.1_RNA	NM_016046	NP_057130	Q9Y3B2	EXOS1_HUMAN	exosomal core protein CSL4	85	S1 motif.				exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|rRNA processing	cytosol|exosome (RNase complex)|nucleolus	protein binding|RNA binding				0		Renal(717;0.000147)|Colorectal(252;0.00205)|Ovarian(717;0.00965)		all cancers(201;8.29e-42)|Epithelial(162;5.7e-33)|BRCA - Breast invasive adenocarcinoma(275;0.000315)|Kidney(138;0.000832)|KIRC - Kidney renal clear cell carcinoma(50;0.00269)|STAD - Stomach adenocarcinoma(243;0.202)		ACAGGATGTGTACTTTGGCAA	0.428													3	77					0	0	0.004672	0	0	
LOXL4	84171	broad.mit.edu	37	10	100021879	100021879	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:100021879A>G	uc001kpa.1	-	3	520	c.369T>C	c.(367-369)AGT>AGC	p.S123S		NM_032211	NP_115587	Q96JB6	LOXL4_HUMAN	lysyl oxidase-like 4 precursor	123	SRCR 1.					extracellular space|membrane	copper ion binding|protein binding|scavenger receptor activity			ovary(3)|breast(1)|skin(1)	5		Colorectal(252;0.234)		Epithelial(162;2.14e-11)|all cancers(201;2.49e-09)		CTTCTGAGTGACTGCAGTCAC	0.597													5	16					0	0	0.006214	0	0	
PYROXD2	84795	broad.mit.edu	37	10	100155209	100155209	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:100155209C>T	uc001kpc.2	-	7	712	c.626G>A	c.(625-627)GGC>GAC	p.G209D	PYROXD2_uc001kpb.2_RNA|PYROXD2_uc001kpd.2_RNA|PYROXD2_uc010qpe.1_Missense_Mutation_p.G209D|MIR1287_hsa-mir-1287|MI0006349_5'Flank	NM_032709	NP_116098	Q8N2H3	PYRD2_HUMAN	pyridine nucleotide-disulphide oxidoreductase	209							oxidoreductase activity			central_nervous_system(1)	1						CAGGATGCGGCCTACAAGAGA	0.557													18	42					0	0	0.007413	0	0	
GOT1	2805	broad.mit.edu	37	10	101157412	101157412	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:101157412C>T	uc001kpr.2	-	9	1342	c.1134G>A	c.(1132-1134)AAG>AAA	p.K378K	GOT1_uc009xwh.2_RNA|GOT1_uc001kpq.1_Silent_p.K91K	NM_002079	NP_002070	P17174	AATC_HUMAN	aspartate aminotransferase 1	378					aspartate catabolic process|cellular response to insulin stimulus|gluconeogenesis|response to glucocorticoid stimulus	cytosol	L-aspartate:2-oxoglutarate aminotransferase activity|pyridoxal phosphate binding				0		Ovarian(717;0.028)|Colorectal(252;0.234)		Epithelial(162;4.76e-10)|all cancers(201;3.84e-08)	L-Aspartic Acid(DB00128)|L-Cysteine(DB00151)|L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	GGTAGATGTGCTTTTCATTGA	0.458													19	57					0	0	0.008871	0	0	
ABCC2	1244	broad.mit.edu	37	10	101560202	101560202	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:101560202C>T	uc001kqf.2	+	9	1230	c.1091C>T	c.(1090-1092)GCA>GTA	p.A364V		NM_000392	NP_000383	Q92887	MRP2_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP),	364	ABC transmembrane type-1 1.|Helical; Name=7; (By similarity).					apical plasma membrane|integral to plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;2.77e-10)|all cancers(201;2.47e-08)	Adenosine triphosphate(DB00171)|Norgestimate(DB00957)|Pravastatin(DB00175)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	TATCTCTGTGCAATCCTCTTA	0.443													13	237					0	0	0.002450	0	0	
DNMBP	23268	broad.mit.edu	37	10	101639731	101639731	+	Missense_Mutation	SNP	G	A	A	rs147752816	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:101639731G>A	uc001kqj.2	-	16	4477	c.4385C>T	c.(4384-4386)ACG>ATG	p.T1462M	DNMBP_uc010qpl.1_Missense_Mutation_p.T398M|DNMBP_uc001kqg.2_Missense_Mutation_p.T750M|DNMBP_uc001kqh.2_Missense_Mutation_p.T1094M	NM_015221	NP_056036	Q6XZF7	DNMBP_HUMAN	dynamin binding protein	1462					intracellular signal transduction|regulation of Rho protein signal transduction	cell junction|cytoskeleton|Golgi stack|synapse	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(5)|skin(1)	6		Colorectal(252;0.234)		Epithelial(162;2.94e-10)|all cancers(201;3.15e-08)		GCTCCTCGGCGTGGCAGTGGG	0.537													5	60					0	0	0.001984	0	0	
PKD2L1	9033	broad.mit.edu	37	10	102054822	102054822	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:102054822C>T	uc001kqx.1	-	8	1798	c.1415G>A	c.(1414-1416)CGC>CAC	p.R472H	PKD2L1_uc009xwm.1_Missense_Mutation_p.R425H	NM_016112	NP_057196	Q9P0L9	PK2L1_HUMAN	polycystic kidney disease 2-like 1	472	Cytoplasmic (Potential).				signal transduction	integral to membrane	calcium activated cation channel activity|calcium ion binding|cytoskeletal protein binding			ovary(4)	4		Colorectal(252;0.117)		Epithelial(162;6.15e-10)|all cancers(201;5.14e-08)		CTTGGCACAGCGGGCCAGCGT	0.512													21	62					0	0	0.003330	0	0	
TLX1	3195	broad.mit.edu	37	10	102896498	102896498	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:102896498T>C	uc001ksw.2	+	3	1059	c.821T>C	c.(820-822)ATC>ACC	p.I274T		NM_005521	NP_005512	P31314	TLX1_HUMAN	T-cell leukemia homeobox 1	274						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)	1				Epithelial(162;6.35e-09)|all cancers(201;3.21e-07)		GCGAACCGCATCCTCCTGCAG	0.667			T	TRB@|TRD@	T-ALL								6	17					0	0	0.008291	0	0	
BTRC	8945	broad.mit.edu	37	10	103294488	103294488	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:103294488C>T	uc001kta.2	+	10	1281	c.1168C>T	c.(1168-1170)CGT>TGT	p.R390C	BTRC_uc001ktb.2_Missense_Mutation_p.R354C|BTRC_uc001ktc.2_Missense_Mutation_p.R364C	NM_033637	NP_378663	Q9Y297	FBW1A_HUMAN	beta-transducin repeat containing protein	390	WD 3.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|positive regulation of proteolysis|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein destabilization|viral reproduction|Wnt receptor signaling pathway	cytosol|nucleus|SCF ubiquitin ligase complex				ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;1.05e-08)|all cancers(201;6.59e-07)		TCTGCACTTGCGTTTCAATAA	0.458													40	109					0	0	0.002852	0	0	
PPRC1	23082	broad.mit.edu	37	10	103899333	103899333	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:103899333C>T	uc001kum.2	+	5	1107	c.1068C>T	c.(1066-1068)GGC>GGT	p.G356G	PPRC1_uc001kun.2_Silent_p.G236G|PPRC1_uc010qqj.1_Silent_p.G356G|PPRC1_uc009xxa.2_RNA	NM_015062	NP_055877	Q5VV67	PPRC1_HUMAN	peroxisome proliferator-activated receptor	356					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.122)		Epithelial(162;4.97e-08)|all cancers(201;8.99e-07)		CCACAGCTGGCGATGACCTGG	0.592													5	60					0	0	0.001168	0	0	
GBF1	8729	broad.mit.edu	37	10	104119942	104119942	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:104119942C>T	uc001kux.1	+	12	1419	c.1179C>T	c.(1177-1179)GGC>GGT	p.G393G	GBF1_uc001kuw.2_3'UTR|GBF1_uc001kuy.1_Silent_p.G393G|GBF1_uc001kuz.1_Silent_p.G394G	NM_004193	NP_004184	Q92538	GBF1_HUMAN	golgi-specific brefeldin A resistant guanine	393					COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|regulation of ARF protein signal transduction|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.0236)		Epithelial(162;5.16e-08)|all cancers(201;1.19e-06)		CTTCCCCAGGCACAGCTTTGG	0.522													83	241					0	0	0.003610	0	0	
TAF5	6877	broad.mit.edu	37	10	105147784	105147784	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:105147784G>A	uc001kwv.2	+	11	2230	c.2207G>A	c.(2206-2208)CGA>CAA	p.R736Q	TAF5_uc010qqq.1_Missense_Mutation_p.R681Q	NM_006951	NP_008882	Q15542	TAF5_HUMAN	TBP-associated factor 5	736	WD 6.				histone acetylation|interspecies interaction between organisms|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	actin cytoskeleton|transcription factor TFIID complex|transcription factor TFTC complex	protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(2)	2		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;1.83e-09)|all cancers(201;1.4e-08)|BRCA - Breast invasive adenocarcinoma(275;0.198)		AATACAGTTCGATTATGGGAT	0.373													6	98					0	0	0.003080	0	0	
CALHM2	51063	broad.mit.edu	37	10	105209370	105209370	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:105209370G>A	uc001kwz.2	-	2	715	c.329C>T	c.(328-330)GCG>GTG	p.A110V	CALHM2_uc001kxa.2_Missense_Mutation_p.A110V|CALHM2_uc001kxc.2_Missense_Mutation_p.A110V|CALHM2_uc001kxb.2_Missense_Mutation_p.A110V|CALHM2_uc001kxd.1_Missense_Mutation_p.A110V	NM_015916	NP_057000	Q9HA72	CAHM2_HUMAN	calcium homeostasis modulator 2	110	Helical; (Potential).					integral to membrane				skin(1)	1						GGCCACAGCCGCACGTCCCAG	0.627													6	31					0	0	0.003080	0	0	
NEURL	9148	broad.mit.edu	37	10	105331403	105331403	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:105331403C>T	uc001kxh.2	+	3	883	c.473C>T	c.(472-474)CCT>CTT	p.P158L		NM_004210	NP_004201	O76050	NEU1A_HUMAN	neuralized-like	158	NHR 1.				nervous system development	perinuclear region of cytoplasm	zinc ion binding				0				Epithelial(162;2.12e-09)|all cancers(201;6.99e-08)|BRCA - Breast invasive adenocarcinoma(275;0.125)		AAGGCGCTGCCTGAGGAGTTT	0.602													4	7					0	0	0.009096	0	0	
C10orf79	80217	broad.mit.edu	37	10	105967430	105967430	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:105967430C>T	uc001kxw.2	-	6	1004	c.888G>A	c.(886-888)TCG>TCA	p.S296S	C10orf79_uc001kxx.3_Silent_p.S296S|C10orf79_uc001kxy.1_Silent_p.S296S|C10orf79_uc001kxz.2_Silent_p.S296S	NM_025145	NP_079421	Q8NDM7	WDR96_HUMAN	hypothetical protein LOC80217	296											0		Colorectal(252;0.178)		Epithelial(162;4.83e-10)|all cancers(201;2.26e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0194)		TACCCAATGGCGATTCCTCTT	0.383													8	74					0	0	0.008291	0	0	
CCDC147	159686	broad.mit.edu	37	10	106130764	106130764	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:106130764G>A	uc001kyh.2	+	7	1176	c.1042G>A	c.(1042-1044)GAA>AAA	p.E348K		NM_001008723	NP_001008723	Q5T655	CC147_HUMAN	coiled-coil domain containing 147	348	Potential.									ovary(2)|central_nervous_system(2)|skin(1)	5		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;7.55e-10)|all cancers(201;3.37e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0189)		GGCAGAAGTCGAACAGCACAA	0.378													28	78					0	0	0.003755	0	0	
SORCS3	22986	broad.mit.edu	37	10	106960891	106960891	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:106960891T>C	uc001kyi.1	+	16	2368	c.2141T>C	c.(2140-2142)GTC>GCC	p.V714A	SORCS3_uc010qqz.1_RNA	NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	714	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		GAGCCTTGTGTCATGGGAGAA	0.458													5	49					0	0	0.000602	0	0	
SORCS3	22986	broad.mit.edu	37	10	107012607	107012607	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:107012607T>C	uc001kyi.1	+	23	3407	c.3180T>C	c.(3178-3180)ATT>ATC	p.I1060I	SORCS3_uc010qqz.1_RNA	NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	1060	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		AGCTTTTCATTCTTCCACCCA	0.507													3	59					0	0	0.004672	0	0	
ACSL5	51703	broad.mit.edu	37	10	114173039	114173039	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:114173039C>T	uc001kzs.2	+	12	1198	c.1057C>T	c.(1057-1059)CGA>TGA	p.R353*	ACSL5_uc001kzt.2_Nonsense_Mutation_p.R353*|ACSL5_uc001kzu.2_Nonsense_Mutation_p.R409*|ACSL5_uc009xxz.2_Nonsense_Mutation_p.R353*|ACSL5_uc010qrj.1_Nonsense_Mutation_p.R135*	NM_203379	NP_976313	Q9ULC5	ACSL5_HUMAN	acyl-CoA synthetase long-chain family member 5	353	Cytoplasmic (Potential).				fatty acid metabolic process|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|mitochondrial outer membrane	ATP binding|long-chain fatty acid-CoA ligase activity			large_intestine(2)|skin(1)	3		Colorectal(252;0.117)|Breast(234;0.222)		Epithelial(162;0.0343)|all cancers(201;0.137)		CGCGGTGCCTCGACTCCTTAA	0.493													11	108					0	0	0.002450	0	0	
HABP2	3026	broad.mit.edu	37	10	115334090	115334090	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:115334090A>C	uc001lai.3	+	3	252	c.149A>C	c.(148-150)AAT>ACT	p.N50T	HABP2_uc010qrz.1_RNA|HABP2_uc010qry.1_Missense_Mutation_p.I39L	NM_004132	NP_004123	Q14520	HABP2_HUMAN	hyaluronan binding protein 2 preproprotein	50					cell adhesion|proteolysis	extracellular space	glycosaminoglycan binding|serine-type endopeptidase activity			ovary(2)|skin(1)	3		Colorectal(252;0.0233)|Breast(234;0.0672)		Epithelial(162;0.00319)|all cancers(201;0.0112)		GAGGATTATAATCAGGAAGAG	0.473													23	88					0	0	0.003330	0	0	
VWA2	340706	broad.mit.edu	37	10	116045881	116045881	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:116045881C>T	uc001lbl.1	+	11	1502	c.1181C>T	c.(1180-1182)GCG>GTG	p.A394V	VWA2_uc001lbk.1_Missense_Mutation_p.A394V|VWA2_uc009xyf.1_Missense_Mutation_p.A90V	NM_198496	NP_940898	Q5GFL6	VWA2_HUMAN	von Willebrand factor A domain containing 2	394	VWFA 2.					extracellular region				ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5				Epithelial(162;0.036)|all cancers(201;0.0793)		CTGCTGGTGGCGGTGCCTGTG	0.667													10	24					0	0	0.000978	0	0	
ATRNL1	26033	broad.mit.edu	37	10	117075167	117075167	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:117075167G>A	uc001lcg.2	+	18	3344	c.2958G>A	c.(2956-2958)ATG>ATA	p.M986I	ATRNL1_uc010qsm.1_Missense_Mutation_p.M161I|ATRNL1_uc010qsn.1_RNA	NM_207303	NP_997186	Q5VV63	ATRN1_HUMAN	attractin-like 1 precursor	986	PSI 5.|Extracellular (Potential).					integral to membrane	sugar binding			ovary(5)|lung(1)|central_nervous_system(1)	7		all_lung(145;0.0686)|Breast(234;0.0969)|Lung NSC(174;0.17)|Colorectal(252;0.234)		Epithelial(162;0.00031)|all cancers(201;0.000753)|LUSC - Lung squamous cell carcinoma(1;0.0515)|Lung(30;0.0827)		TTATTGGAATGCACCACAGTG	0.433													25	103					0	0	0.008361	0	0	
PNLIPRP3	119548	broad.mit.edu	37	10	118215275	118215275	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:118215275C>T	uc001lcl.3	+	5	599	c.498C>T	c.(496-498)GGC>GGT	p.G166G		NM_001011709	NP_001011709	Q17RR3	LIPR3_HUMAN	pancreatic lipase-related protein 3 precursor	166					lipid catabolic process	extracellular region	triglyceride lipase activity			ovary(1)	1				all cancers(201;0.0131)		ACTTGATTGGCCACAGCTTGG	0.433													11	30					0	0	0.001855	0	0	
PNLIPRP3	119548	broad.mit.edu	37	10	118228829	118228829	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:118228829C>T	uc001lcl.3	+	9	1161	c.1060C>T	c.(1060-1062)CGT>TGT	p.R354C		NM_001011709	NP_001011709	Q17RR3	LIPR3_HUMAN	pancreatic lipase-related protein 3 precursor	354					lipid catabolic process	extracellular region	triglyceride lipase activity			ovary(1)	1				all cancers(201;0.0131)		CCCATTTGCCCGTAAGTATCA	0.254													3	26					0	0	0.004672	0	0	
Unknown	0	broad.mit.edu	37	10	118639453	118639453	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:118639453G>A	uc001lcw.2	+	6	783	c.728G>A	c.(727-729)CGC>CAC	p.R243H						SubName: Full=Putative uncharacterized protein C10orf134;																		AAATACAACCGCCTTCTCACT	0.453													5	12					0	0	0.000602	0	0	
PDZD8	118987	broad.mit.edu	37	10	119043322	119043322	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:119043322C>T	uc001lde.1	-	5	3121	c.2922G>A	c.(2920-2922)ACG>ACA	p.T974T		NM_173791	NP_776152	Q8NEN9	PDZD8_HUMAN	PDZ domain containing 8	974					intracellular signal transduction		metal ion binding				0		Colorectal(252;0.19)		all cancers(201;0.0121)		CGTTGTCTGACGTGTTGGGTG	0.463													14	277					0	0	0.003163	0	0	
EIF3A	8661	broad.mit.edu	37	10	120832428	120832428	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:120832428C>T	uc001ldu.2	-	4	661	c.515G>A	c.(514-516)CGC>CAC	p.R172H	EIF3A_uc010qsu.1_Missense_Mutation_p.R138H	NM_003750	NP_003741	Q14152	EIF3A_HUMAN	eukaryotic translation initiation factor 3,	172					formation of translation initiation complex	cytosol|eukaryotic translation initiation factor 3 complex	protein binding|structural molecule activity|translation initiation factor activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0236)		ATGGTACAGGCGCTCTACTCT	0.393													7	143					0	0	0.001984	0	0	
RGS10	6001	broad.mit.edu	37	10	121275054	121275054	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:121275054C>T	uc001lee.2	-	3	342	c.342G>A	c.(340-342)CCG>CCA	p.P114P	RGS10_uc001lef.2_Silent_p.P108P|RGS10_uc001leg.2_Silent_p.P122P	NM_002925	NP_002916	O43665	RGS10_HUMAN	regulator of G-protein signaling 10 isoform b	114	RGS.				negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|protein binding|signal transducer activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.00105)|GBM - Glioblastoma multiforme(135;0.195)		TCAGAGGGTGCGGTTCTTCCA	0.512													15	20					0	0	0.003163	0	0	
RGS10	6001	broad.mit.edu	37	10	121286870	121286870	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:121286870G>A	uc001lee.2	-	1	92	c.92C>T	c.(91-93)GCG>GTG	p.A31V	RGS10_uc001lef.2_Missense_Mutation_p.A25V|RGS10_uc001leg.2_Missense_Mutation_p.A39V	NM_002925	NP_002916	O43665	RGS10_HUMAN	regulator of G-protein signaling 10 isoform b	31					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|protein binding|signal transducer activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.00105)|GBM - Glioblastoma multiforme(135;0.195)		CAGGGATGCCGCCCATTTGGC	0.512													10	28					0	0	0.001368	0	0	
INPP5F	22876	broad.mit.edu	37	10	121551118	121551118	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:121551118G>A	uc001leo.2	+	4	571	c.405G>A	c.(403-405)ACG>ACA	p.T135T	INPP5F_uc001len.3_Silent_p.T135T	NM_014937	NP_055752	Q9Y2H2	SAC2_HUMAN	inositol polyphosphate-5-phosphatase F	135							phosphoric ester hydrolase activity			ovary(2)	2		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.00205)|BRCA - Breast invasive adenocarcinoma(275;0.158)		AGACCTTTACGCATATTAAAT	0.318													5	99					0	0	0.000602	0	0	
C10orf119	79892	broad.mit.edu	37	10	121591566	121591566	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:121591566C>T	uc001ler.2	-	15	2058	c.1760G>A	c.(1759-1761)AGC>AAC	p.S587N	C10orf119_uc001leq.1_Missense_Mutation_p.S412N|C10orf119_uc001les.1_Missense_Mutation_p.S412N	NM_024834	NP_079110	Q9BTE3	MCMBP_HUMAN	chromosome 10 open reading frame 119	587					cell division|DNA-dependent DNA replication|mitosis|S phase of mitotic cell cycle|sister chromatid cohesion	nucleus	chromatin binding				0		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.0044)		AGCAGTGATGCTCTGAGGGTC	0.428													6	72					0	0	0.008291	0	0	
C10orf119	79892	broad.mit.edu	37	10	121612620	121612620	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:121612620G>A	uc001ler.2	-	6	814	c.516C>T	c.(514-516)GAC>GAT	p.D172D	C10orf119_uc001leq.1_Translation_Start_Site|C10orf119_uc001les.1_Translation_Start_Site|C10orf119_uc001let.1_Translation_Start_Site	NM_024834	NP_079110	Q9BTE3	MCMBP_HUMAN	chromosome 10 open reading frame 119	172					cell division|DNA-dependent DNA replication|mitosis|S phase of mitotic cell cycle|sister chromatid cohesion	nucleus	chromatin binding				0		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.0044)		GGTCCATATCGTCATCATCTT	0.458													10	194					0	0	0.008291	0	0	
TACC2	10579	broad.mit.edu	37	10	123846012	123846012	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:123846012C>T	uc001lfv.2	+	4	4357	c.3997C>T	c.(3997-3999)CCA>TCA	p.P1333S	TACC2_uc001lfw.2_Intron|TACC2_uc009xzx.2_Missense_Mutation_p.P1333S|TACC2_uc010qtv.1_Missense_Mutation_p.P1333S	NM_206862	NP_996744	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing	1333						microtubule organizing center|nucleus	nuclear hormone receptor binding			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10		all_neural(114;0.0656)|Lung NSC(174;0.136)|all_lung(145;0.17)|Breast(234;0.197)				GGACCGGATGCCACTTCTGGC	0.612													5	31					0	0	0.000602	0	0	
HTRA1	5654	broad.mit.edu	37	10	124268280	124268280	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:124268280G>A	uc001lgj.2	+	6	1242	c.1114G>A	c.(1114-1116)GCC>ACC	p.A372T		NM_002775	NP_002766	Q92743	HTRA1_HUMAN	HtrA serine peptidase 1 precursor	372	PDZ.				proteolysis|regulation of cell growth	extracellular space	insulin-like growth factor binding|serine-type endopeptidase activity				0		all_neural(114;0.0765)|Lung NSC(174;0.133)|all_lung(145;0.163)|Breast(234;0.238)				TGACCGACAGGCCAAAGGTAG	0.537													22	70					0	0	0.002780	0	0	
ACADSB	36	broad.mit.edu	37	10	124800157	124800157	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:124800157C>T	uc001lhb.2	+	4	596	c.479C>T	c.(478-480)GCC>GTC	p.A160V	ACADSB_uc010qub.1_Missense_Mutation_p.A58V	NM_001609	NP_001600	P45954	ACDSB_HUMAN	acyl-Coenzyme A dehydrogenase, short/branched	160					branched chain family amino acid catabolic process|fatty acid metabolic process	mitochondrial matrix	flavin adenine dinucleotide binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3		all_neural(114;0.0765)|Colorectal(57;0.102)|all_lung(145;0.11)|Lung NSC(174;0.163)		Colorectal(40;0.0811)|COAD - Colon adenocarcinoma(40;0.0835)	L-Isoleucine(DB00167)	GAACAAAAGGCCACCTATTTG	0.348													5	91					0	0	0.001984	0	0	
CPXM2	119587	broad.mit.edu	37	10	125528124	125528124	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:125528124C>T	uc001lhk.1	-	9	1542	c.1217G>A	c.(1216-1218)CGC>CAC	p.R406H	CPXM2_uc001lhj.2_RNA	NM_198148	NP_937791	Q8N436	CPXM2_HUMAN	carboxypeptidase X (M14 family), member 2	406					cell adhesion|proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2		all_lung(145;0.174)|Colorectal(57;0.178)|Glioma(114;0.222)|all_neural(114;0.226)|Lung NSC(174;0.233)		COAD - Colon adenocarcinoma(40;0.212)|Colorectal(40;0.237)		GTGGACGATGCGCGCATTCCG	0.647													12	43					0	0	0.001855	0	0	
CHST15	51363	broad.mit.edu	37	10	125780848	125780848	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:125780848T>C	uc001lhl.2	-	5	1784	c.1271A>G	c.(1270-1272)CAG>CGG	p.Q424R	CHST15_uc001lhm.2_Missense_Mutation_p.Q424R|CHST15_uc001lhn.2_Missense_Mutation_p.Q424R|CHST15_uc010que.1_Missense_Mutation_p.Q424R|CHST15_uc001lho.2_Missense_Mutation_p.Q424R	NM_015892	NP_056976	Q7LFX5	CHSTF_HUMAN	B cell RAG associated protein	424	Lumenal (Potential).				hexose biosynthetic process	Golgi membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|N-acetylgalactosamine 4-sulfate 6-O-sulfotransferase activity			ovary(1)	1						TTCAAACAGCTGCAGTGCTTC	0.478													11	16					0	0	0.001368	0	0	
ZRANB1	54764	broad.mit.edu	37	10	126631374	126631374	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:126631374T>C	uc001lic.2	+	1	683	c.312T>C	c.(310-312)TGT>TGC	p.C104C	ZRANB1_uc010qug.1_Silent_p.C130C	NM_017580	NP_060050	Q9UGI0	ZRAN1_HUMAN	zinc finger, RAN-binding domain containing 1	104	RanBP2-type 2.				positive regulation of Wnt receptor signaling pathway|protein K63-linked deubiquitination|Wnt receptor signaling pathway	aggresome|centrosome|intermediate filament cytoskeleton|nucleolus	cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|kidney(1)	2		all_lung(145;0.0132)|Lung NSC(174;0.0193)|all_neural(114;0.116)|Colorectal(57;0.172)		Colorectal(40;0.113)|COAD - Colon adenocarcinoma(40;0.119)		CAATCAGATGTACCCAGTGCT	0.458													13	98					0	0	0.003163	0	0	
ZRANB1	54764	broad.mit.edu	37	10	126671767	126671767	+	Silent	SNP	G	A	A	rs75293113	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:126671767G>A	uc001lic.2	+	7	1943	c.1572G>A	c.(1570-1572)ACG>ACA	p.T524T	ZRANB1_uc010qug.1_Silent_p.T550T	NM_017580	NP_060050	Q9UGI0	ZRAN1_HUMAN	zinc finger, RAN-binding domain containing 1	524	OTU.|TRAF-binding.				positive regulation of Wnt receptor signaling pathway|protein K63-linked deubiquitination|Wnt receptor signaling pathway	aggresome|centrosome|intermediate filament cytoskeleton|nucleolus	cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|kidney(1)	2		all_lung(145;0.0132)|Lung NSC(174;0.0193)|all_neural(114;0.116)|Colorectal(57;0.172)		Colorectal(40;0.113)|COAD - Colon adenocarcinoma(40;0.119)		TGGAGCAGACGCACATTTTTG	0.363													8	82					0	0	0.006214	0	0	
CTBP2	1488	broad.mit.edu	37	10	126691653	126691653	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:126691653G>A	uc009yak.2	-	5	521	c.234C>T	c.(232-234)GGC>GGT	p.G78G	CTBP2_uc009yal.2_Silent_p.G78G|CTBP2_uc001lif.3_Silent_p.G78G|CTBP2_uc001lih.3_Silent_p.G78G|CTBP2_uc001lid.3_Silent_p.G146G|CTBP2_uc001lie.3_Silent_p.G618G	NM_001329	NP_001320	P56545	CTBP2_HUMAN	C-terminal binding protein 2 isoform 1	78					negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent|viral genome replication|white fat cell differentiation	cell junction|synapse|transcriptional repressor complex	NAD binding|oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor|protein binding				0		all_lung(145;0.0132)|Lung NSC(174;0.0193)|all_neural(114;0.116)|Colorectal(57;0.173)		Colorectal(40;0.00572)|COAD - Colon adenocarcinoma(40;0.0127)|GBM - Glioblastoma multiforme(135;0.147)		ACATCATGGCGCCCACGGCTT	0.632													4	37					0	0	0.001168	0	0	
C10orf137	26098	broad.mit.edu	37	10	127414270	127414270	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:127414270G>A	uc001liq.1	+	6	948	c.655G>A	c.(655-657)GCT>ACT	p.A219T	C10orf137_uc001lin.2_Missense_Mutation_p.A219T|C10orf137_uc001lio.1_Missense_Mutation_p.A219T|C10orf137_uc001lip.1_5'UTR	NM_015608	NP_056423	Q3B7T1	EDRF1_HUMAN	erythroid differentiation-related factor 1	219					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	binding			ovary(5)|large_intestine(3)|lung(2)	10		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				TGATGGAGCCGCTCAGCCTGT	0.458													9	31					0	0	0.006214	0	0	
C10orf137	26098	broad.mit.edu	37	10	127424342	127424342	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:127424342C>T	uc001liq.1	+	13	1920	c.1627C>T	c.(1627-1629)CCC>TCC	p.P543S	C10orf137_uc001lin.2_Missense_Mutation_p.P509S|C10orf137_uc001lio.1_Missense_Mutation_p.P509S|C10orf137_uc001lip.1_Missense_Mutation_p.P247S|C10orf137_uc001lir.2_Missense_Mutation_p.P37S	NM_015608	NP_056423	Q3B7T1	EDRF1_HUMAN	erythroid differentiation-related factor 1	543					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	binding			ovary(5)|large_intestine(3)|lung(2)	10		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				GGAAGAGATGCCCGACAGTGA	0.378													15	51					0	0	0.003163	0	0	
DHX32	55760	broad.mit.edu	37	10	127540971	127540971	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:127540971C>T	uc001ljf.1	-	6	1733	c.1242G>A	c.(1240-1242)ACG>ACA	p.T414T	BCCIP_uc001ljd.3_Intron|DHX32_uc001lje.1_Silent_p.T38T|DHX32_uc001ljg.1_Silent_p.T414T|DHX32_uc009yam.1_Silent_p.T169T	NM_018180	NP_060650	Q7L7V1	DHX32_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 32	414						mitochondrion|nucleus	ATP binding|helicase activity			breast(2)|ovary(1)|lung(1)	4		all_lung(145;0.00751)|Lung NSC(174;0.0115)|Colorectal(57;0.0846)|all_neural(114;0.0936)				GCTTCAGTGGCGTCATGTCTT	0.438													13	78					0	0	0.001855	0	0	
FANK1	92565	broad.mit.edu	37	10	127697110	127697110	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:127697110G>A	uc001ljh.3	+	8	944	c.840G>A	c.(838-840)ACG>ACA	p.T280T	FANK1_uc009yan.2_Silent_p.T306T|FANK1_uc001lji.2_Silent_p.T274T	NM_145235	NP_660278	Q8TC84	FANK1_HUMAN	fibronectin type III and ankyrin repeat domains	280	ANK 6.					cytoplasm|nucleus				ovary(1)	1		all_lung(145;0.00752)|Lung NSC(174;0.0115)|Colorectal(57;0.0847)|all_neural(114;0.0936)				ATGGAAAGACGCCCCTTATGG	0.468													18	56					0	0	0.007413	0	0	
FAM196A	642938	broad.mit.edu	37	10	128973888	128973888	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:128973888C>T	uc001lju.1	-	1	813	c.772G>A	c.(772-774)GCA>ACA	p.A258T	DOCK1_uc001ljt.2_Intron|DOCK1_uc010qun.1_Intron|FAM196A_uc010quo.1_Missense_Mutation_p.A258T|FAM196A_uc001ljv.1_Missense_Mutation_p.A258T|FAM196A_uc009yap.1_Missense_Mutation_p.A258T	NM_001039762	NP_001034851	Q6ZSG2	F196A_HUMAN	hypothetical protein LOC642938	258										ovary(2)	2						AGGGCAGGTGCGTAAACGGTG	0.667													4	12					0	0	0.009096	0	0	
MKI67	4288	broad.mit.edu	37	10	129905990	129905990	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:129905990G>A	uc001lke.2	-	13	4309	c.4114C>T	c.(4114-4116)CCC>TCC	p.P1372S	MKI67_uc001lkf.2_Missense_Mutation_p.P1012S|MKI67_uc009yav.1_Missense_Mutation_p.P947S|MKI67_uc009yaw.1_Missense_Mutation_p.P522S	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	1372	16 X 122 AA approximate repeats.|4.				cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				GATTCGCAGGGCATTTTAGTA	0.522													5	70					0	0	0.000602	0	0	
GLRX3	10539	broad.mit.edu	37	10	131973264	131973264	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:131973264C>T	uc001lkm.1	+	10	890	c.868C>T	c.(868-870)CGG>TGG	p.R290W	GLRX3_uc001lkn.1_Missense_Mutation_p.R290W|GLRX3_uc001lko.2_RNA	NM_006541	NP_006532	O76003	GLRX3_HUMAN	glutaredoxin 3	290	Glutaredoxin 2.				cell redox homeostasis|negative regulation of cardiac muscle hypertrophy|regulation of the force of heart contraction	cell cortex	electron carrier activity|iron-sulfur cluster binding|metal ion binding|protein disulfide oxidoreductase activity				0		all_cancers(35;9.59e-07)|all_epithelial(44;1.48e-06)|Lung NSC(174;0.00566)|all_lung(145;0.00949)|Colorectal(57;0.142)|all_neural(114;0.16)|Breast(234;0.173)|Glioma(114;0.222)		OV - Ovarian serous cystadenocarcinoma(35;0.00218)		TCTTTAGGTTCGGCAAGGATT	0.428													20	42					0	0	0.002780	0	0	
TCERG1L	256536	broad.mit.edu	37	10	132944908	132944908	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:132944908C>T	uc001lkp.2	-	7	1136	c.1050G>A	c.(1048-1050)ACG>ACA	p.T350T	TCERG1L_uc009yax.1_RNA	NM_174937	NP_777597	Q5VWI1	TCRGL_HUMAN	transcription elongation regulator 1-like	350	WW 2.									large_intestine(2)|ovary(2)	4		all_cancers(35;1.22e-10)|all_epithelial(44;2.65e-09)|Lung NSC(174;0.00188)|all_lung(145;0.00307)|Melanoma(40;0.0179)|all_neural(114;0.0424)|Breast(234;0.0743)|Colorectal(57;0.09)		all cancers(32;0.000899)|OV - Ovarian serous cystadenocarcinoma(35;0.0021)|Epithelial(32;0.00276)		GGTCATCGCCCGTCCAGACCA	0.502													27	58					0	0	0.002096	0	0	
BNIP3	664	broad.mit.edu	37	10	133784260	133784260	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:133784260C>T	uc001lkv.1	-	5	547	c.421G>A	c.(421-423)GCC>ACC	p.A141T	BNIP3_uc001lku.1_5'Flank|BNIP3_uc010qut.1_Missense_Mutation_p.A141T	NM_004052	NP_004043	Q12983	BNIP3_HUMAN	BCL2/adenovirus E1B 19kD-interacting protein 3	141					cellular response to cobalt ion|cellular response to hypoxia|cellular response to mechanical stimulus|chromatin remodeling|defense response to virus|DNA fragmentation involved in apoptotic nuclear change|induction of apoptosis|interspecies interaction between organisms|mitochondrial fragmentation involved in apoptosis|negative regulation of membrane potential|negative regulation of mitochondrial fusion|negative regulation of survival gene product expression|neuron apoptosis|positive regulation of mitochondrial fission|positive regulation of protein complex disassembly|positive regulation of release of cytochrome c from mitochondria|reactive oxygen species metabolic process|regulation of mitochondrial membrane permeability	dendrite|integral to mitochondrial outer membrane|nuclear envelope|nucleoplasm	GTPase binding|protein heterodimerization activity|protein homodimerization activity			lung(1)|skin(1)	2		all_cancers(35;4e-11)|all_epithelial(44;5.07e-08)|Ovarian(717;2.61e-05)|Lung NSC(174;0.00237)|all_lung(145;0.00354)|Breast(234;0.023)|all_neural(114;0.0299)|Colorectal(31;0.109)|Melanoma(40;0.123)|Glioma(114;0.203)		Epithelial(32;1.59e-12)|all cancers(32;3.75e-11)|OV - Ovarian serous cystadenocarcinoma(35;2.57e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		CTGAGGGTGGCCGTGCGCTTC	0.522													4	41					0	0	0.009096	0	0	
JAKMIP3	282973	broad.mit.edu	37	10	133930823	133930823	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:133930823C>T	uc001lkx.3	+	2	378	c.378C>T	c.(376-378)GGC>GGT	p.G126G		NM_001105521	NP_001098991			Janus kinase and microtubule interacting protein											breast(1)	1		all_cancers(35;5.63e-09)|all_epithelial(44;9.25e-07)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|Colorectal(31;0.0721)|all_neural(114;0.0726)|Breast(234;0.0949)|Glioma(114;0.172)|Melanoma(40;0.175)		OV - Ovarian serous cystadenocarcinoma(35;0.000104)|Epithelial(32;0.000142)|all cancers(32;0.000185)|BRCA - Breast invasive adenocarcinoma(275;0.224)		TGCGTGATGGCGGCCCCGAAA	0.617													12	26					0	0	0.001855	0	0	
JAKMIP3	282973	broad.mit.edu	37	10	133954021	133954021	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:133954021G>A	uc001lkx.3	+	9	1411	c.1411G>A	c.(1411-1413)GTC>ATC	p.V471I		NM_001105521	NP_001098991			Janus kinase and microtubule interacting protein											breast(1)	1		all_cancers(35;5.63e-09)|all_epithelial(44;9.25e-07)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|Colorectal(31;0.0721)|all_neural(114;0.0726)|Breast(234;0.0949)|Glioma(114;0.172)|Melanoma(40;0.175)		OV - Ovarian serous cystadenocarcinoma(35;0.000104)|Epithelial(32;0.000142)|all cancers(32;0.000185)|BRCA - Breast invasive adenocarcinoma(275;0.224)		CGGCTCCTCCGTCTCTTACCA	0.587													6	4					0	0	0.003080	0	0	
LRRC27	80313	broad.mit.edu	37	10	134165170	134165170	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:134165170C>T	uc010quw.1	+	7	1181	c.986C>T	c.(985-987)GCG>GTG	p.A329V	LRRC27_uc001llf.2_Nonsense_Mutation_p.R361*|LRRC27_uc010quv.1_Missense_Mutation_p.A329V|LRRC27_uc001llg.2_RNA|LRRC27_uc001lli.2_Missense_Mutation_p.A329V|LRRC27_uc001llj.2_Missense_Mutation_p.A267V|LRRC27_uc001llk.3_Missense_Mutation_p.A202V	NM_030626	NP_085129	Q9C0I9	LRC27_HUMAN	leucine rich repeat containing 27 isoform a	329	Potential.									ovary(1)	1		all_cancers(35;6.28e-08)|all_epithelial(44;6.75e-06)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)|Colorectal(31;0.19)		OV - Ovarian serous cystadenocarcinoma(35;9.12e-05)|Epithelial(32;0.000116)|all cancers(32;0.000145)|BRCA - Breast invasive adenocarcinoma(275;0.218)		TACCAAATGGCGATCCGAGCA	0.522													12	143					0	0	0.004007	0	0	
INPP5A	3632	broad.mit.edu	37	10	134463965	134463965	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:134463965C>T	uc001llp.2	+	4	510	c.262C>T	c.(262-264)CGA>TGA	p.R88*	INPP5A_uc001llo.1_Nonsense_Mutation_p.R88*|INPP5A_uc001llq.2_Nonsense_Mutation_p.R40*	NM_005539	NP_005530	Q14642	I5P1_HUMAN	inositol polyphosphate-5-phosphatase A	88					cell communication	membrane	inositol 1,3,4,5-tetrakisphosphate 5-phosphatase activity|inositol-1,4,5-trisphosphate 5-phosphatase activity|inositol-polyphosphate 5-phosphatase activity|PH domain binding			skin(1)	1		all_cancers(35;8.59e-13)|all_epithelial(44;5.49e-09)|Lung NSC(174;0.000854)|all_lung(145;0.00146)|all_neural(114;0.0299)|Colorectal(31;0.0599)|Breast(234;0.0849)|Melanoma(40;0.124)|all_hematologic(284;0.196)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;0.000102)|Epithelial(32;0.00023)|all cancers(32;0.000326)		TAACAGGGCTCGAGTCTACCT	0.527													19	240					0	0	0.002299	0	0	
Unknown	0	broad.mit.edu	37	10	134623955	134623955	+	Missense_Mutation	SNP	G	A	A	rs143790683		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:134623955G>A	uc010qux.1	-	49	6800	c.6800C>T	c.(6799-6801)GCG>GTG	p.A2267V		NM_017609	NP_060079			Homo sapiens cDNA, FLJ17989.																		TGAAGGAGACGCACTGTTTCT	0.622													12	32					0	0	0.004990	0	0	
Unknown	0	broad.mit.edu	37	10	134648190	134648190	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:134648190C>T	uc010qux.1	-	40	6012	c.6012G>A	c.(6010-6012)CCG>CCA	p.P2004P		NM_017609	NP_060079			Homo sapiens cDNA, FLJ17989.																		GGGGGAATAGCGGCTGCAGAA	0.632													4	6					0	0	0.000602	0	0	
KNDC1	85442	broad.mit.edu	37	10	135010567	135010567	+	Silent	SNP	C	T	T	rs142706564	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:135010567C>T	uc001llz.1	+	11	1741	c.1740C>T	c.(1738-1740)TGC>TGT	p.C580C	KNDC1_uc001lma.1_Silent_p.C515C|KNDC1_uc001lmb.1_5'UTR	NM_152643	NP_689856	Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND)	580	KIND 2.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction					upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(35;4.16e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00145)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.173)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.77e-06)|Epithelial(32;1.13e-05)|all cancers(32;1.51e-05)		TCCAGGTGTGCGGCAGCTACC	0.572													7	21					0	0	0.000978	0	0	
KNDC1	85442	broad.mit.edu	37	10	135038246	135038246	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:135038246A>G	uc001llz.1	+	30	5103	c.5102A>G	c.(5101-5103)TAC>TGC	p.Y1701C		NM_152643	NP_689856	Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND)	1701	Ras-GEF.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction					upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(35;4.16e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00145)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.173)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.77e-06)|Epithelial(32;1.13e-05)|all cancers(32;1.51e-05)		CTCCAGTCGTACCTCAAGCAG	0.587													5	22					0	0	0.001984	0	0	
FRG2B	441581	broad.mit.edu	37	10	135439043	135439043	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:135439043G>A	uc010qvg.1	-	4	450	c.397C>T	c.(397-399)CAC>TAC	p.H133Y		NM_001080998	NP_001074467	Q96QU4	FRG2B_HUMAN	FSHD region gene 2 family, member B	133						nucleus					0		all_cancers(35;7.01e-07)|all_epithelial(44;1.45e-05)|Lung NSC(174;0.027)|all_lung(145;0.0384)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)		OV - Ovarian serous cystadenocarcinoma(35;1.12e-06)|all cancers(32;1.43e-06)|Epithelial(32;1.71e-06)		TCACTGTTGTGCACAGGAGTG	0.527													26	54					0	0	0.004656	0	0	
EPS8L2	64787	broad.mit.edu	37	11	722405	722405	+	Missense_Mutation	SNP	T	C	C	rs142316225		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:722405T>C	uc001lqt.2	+	13	1311	c.1064T>C	c.(1063-1065)GTC>GCC	p.V355A	EPS8L2_uc001lqu.2_Missense_Mutation_p.V355A|EPS8L2_uc010qwk.1_Missense_Mutation_p.V371A|EPS8L2_uc001lqv.2_Missense_Mutation_p.V310A|EPS8L2_uc001lqw.2_5'UTR|EPS8L2_uc001lqx.2_5'UTR|EPS8L2_uc001lqy.2_5'Flank	NM_022772	NP_073609	Q9H6S3	ES8L2_HUMAN	epidermal growth factor receptor pathway	355						cytoplasm				pancreas(1)	1		all_cancers(49;1.24e-08)|all_epithelial(84;1.87e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.106)|all_lung(207;0.136)		all cancers(45;4.37e-27)|Epithelial(43;2.81e-26)|OV - Ovarian serous cystadenocarcinoma(40;1.33e-20)|BRCA - Breast invasive adenocarcinoma(625;4.29e-05)|Lung(200;0.0582)|LUSC - Lung squamous cell carcinoma(625;0.0703)		CCCCAGATCGTCAACACCTGC	0.662													7	37					0	0	0.001984	0	0	
TSPAN4	7106	broad.mit.edu	37	11	865745	865745	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:865745G>A	uc001lsd.1	+	7	693	c.484G>A	c.(484-486)GCC>ACC	p.A162T	TSPAN4_uc001lse.1_Missense_Mutation_p.A98T|TSPAN4_uc001lsf.1_Missense_Mutation_p.A162T|TSPAN4_uc001lsg.1_Missense_Mutation_p.A162T|TSPAN4_uc001lsh.1_Missense_Mutation_p.A162T|TSPAN4_uc001lsi.1_Missense_Mutation_p.A162T|TSPAN4_uc001lsj.1_Missense_Mutation_p.A162T	NM_003271	NP_003262	O14817	TSN4_HUMAN	tetraspanin 4 isoform a	162	Extracellular (Potential).				protein complex assembly	integral to plasma membrane				breast(1)	1		all_cancers(49;2.64e-08)|all_epithelial(84;4.17e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)|all_lung(207;0.24)		all cancers(45;4.32e-25)|Epithelial(43;3.29e-24)|BRCA - Breast invasive adenocarcinoma(625;4.23e-05)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GGTGTACAACGCCACGCGGGT	0.662													13	13					0	0	0.003163	0	0	
MUC6	4588	broad.mit.edu	37	11	1016812	1016812	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:1016812T>C	uc001lsw.2	-	31	6040	c.5989A>G	c.(5989-5991)ACC>GCC	p.T1997A		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	1997	Thr-rich.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TGTGATGGGGTTGGATAGGTA	0.542													11	715					0	0	0.006122	0	0	
MUC5B	727897	broad.mit.edu	37	11	1281031	1281031	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:1281031G>A	uc009ycr.1	+	67	17896	c.17770G>A	c.(17770-17772)GTC>ATC	p.V5924I	MUC5B_uc001ltb.2_Missense_Mutation_p.V5590I	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	5587	VWFC 3.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		TGGGGAGTGCGTCCAGACCGC	0.667													7	19					0	0	0.004482	0	0	
KRTAP5-6	440023	broad.mit.edu	37	11	1718528	1718528	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:1718528G>A	uc001lua.2	+	1	104	c.53G>A	c.(52-54)GGC>GAC	p.G18D		NM_001012416	NP_001012416	Q6L8G9	KRA56_HUMAN	keratin associated protein 5-6	18						keratin filament					0		all_epithelial(84;0.00018)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00136)|Lung(200;0.0681)|LUSC - Lung squamous cell carcinoma(625;0.082)		GGGGGCTGTGGCTCTGGCTGT	0.657													6	57					0	0	0.003080	0	0	
LOC650368	650368	broad.mit.edu	37	11	3427765	3427765	+	RNA	SNP	G	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:3427765G>C	uc010qxs.1	+	9		c.758G>C			LOC650368_uc001lxx.2_RNA|LOC650368_uc001lxy.2_RNA	NR_024248				Homo sapiens cDNA FLJ41654 fis, clone FEBRA2025463, weakly  similar to Homo sapiens HMT-1 mRNA for beta-1,4 mannosyltransferase.												0						CACACGTCCTGCAGTGGCCTG	0.602													4	46					0	0	0.009096	0	0	
ART5	116969	broad.mit.edu	37	11	3660999	3660999	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:3660999G>A	uc001lyb.1	-	2	1053	c.660C>T	c.(658-660)CGC>CGT	p.R220R	ART5_uc001lyc.1_Silent_p.R220R|ART5_uc001lyd.2_Intron|ART5_uc009yea.2_Intron	NM_053017	NP_443750	Q96L15	NAR5_HUMAN	ADP-ribosyltransferase 5 precursor	220						extracellular region	NAD(P)+-protein-arginine ADP-ribosyltransferase activity			ovary(1)	1		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0336)|LUSC - Lung squamous cell carcinoma(625;0.19)		TCAGCACCTCGCGCTCCTTGG	0.512													6	100					0	0	0.001984	0	0	
PGAP2	27315	broad.mit.edu	37	11	3845179	3845179	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:3845179C>T	uc001lys.2	+	4	541	c.415C>T	c.(415-417)CGT>TGT	p.R139C	PGAP2_uc001lyl.2_Missense_Mutation_p.R96C|PGAP2_uc010qxw.1_Missense_Mutation_p.R196C|PGAP2_uc010qxx.1_Missense_Mutation_p.A119V|PGAP2_uc001lyp.3_Intron|PGAP2_uc010qxy.1_Missense_Mutation_p.R135C|PGAP2_uc010qxz.1_Missense_Mutation_p.R135C|PGAP2_uc001lyn.3_Missense_Mutation_p.A31V|PGAP2_uc010qya.1_RNA|PGAP2_uc001lyr.2_Missense_Mutation_p.R78C|PGAP2_uc010qyb.1_Missense_Mutation_p.A81V|PGAP2_uc001lyt.2_5'UTR	NM_014489	NP_055304	Q9UHJ9	PGAP2_HUMAN	FGF receptor activating protein 1 isoform 1	139					GPI anchor biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	protein transporter activity				0						CTACGTGTGGCGTTTCTGCAT	0.637													5	46					0	0	0.000602	0	0	
OR52B4	143496	broad.mit.edu	37	11	4389392	4389392	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:4389392C>T	uc010qye.1	-	1	134	c.134G>A	c.(133-135)AGC>AAC	p.S45N		NM_001005161	NP_001005161	Q8NGK2	O52B4_HUMAN	olfactory receptor, family 52, subfamily B,	45	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0249)|all_neural(188;0.0577)		Epithelial(150;1.57e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0826)|LUSC - Lung squamous cell carcinoma(625;0.19)		GATGAGCAGGCTGTTCCCAAG	0.527													5	35					0	0	0.001984	0	0	
OR52I2	143502	broad.mit.edu	37	11	4608901	4608901	+	Missense_Mutation	SNP	G	A	A	rs150458035	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:4608901G>A	uc010qyh.1	+	1	859	c.859G>A	c.(859-861)GCA>ACA	p.A287T		NM_001005170	NP_001005170	Q8NH67	O52I2_HUMAN	olfactory receptor, family 52, subfamily I,	287	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;8.45e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0285)|LUSC - Lung squamous cell carcinoma(625;0.19)		ACCTGGGATGGCATCCATCTA	0.522													29	81					0	0	0.009535	0	0	
OR51D1	390038	broad.mit.edu	37	11	4661818	4661818	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:4661818A>G	uc010qyk.1	+	1	798	c.798A>G	c.(796-798)GTA>GTG	p.V266V		NM_001004751	NP_001004751	Q8NGF3	O51D1_HUMAN	olfactory receptor, family 51, subfamily D,	266	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;2.74e-13)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|GBM - Glioblastoma multiforme(2;0.0841)|LUSC - Lung squamous cell carcinoma(625;0.19)		TCTTCTATGTACCCCTCATTG	0.552													3	63					0	0	0.009096	0	0	
OR51E1	143503	broad.mit.edu	37	11	4674699	4674699	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:4674699G>A	uc001lzi.3	+	2	1087	c.943G>A	c.(943-945)GCT>ACT	p.A315T		NM_152430	NP_689643	Q8TCB6	O51E1_HUMAN	olfactory receptor, family 51, subfamily E,	314	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(3)|pancreas(1)	4		Medulloblastoma(188;0.0025)|Breast(177;0.0101)|all_neural(188;0.0227)		Epithelial(150;7.37e-14)|GBM - Glioblastoma multiforme(2;2.85e-05)|BRCA - Breast invasive adenocarcinoma(625;0.00222)|LUSC - Lung squamous cell carcinoma(625;0.19)		GGCCACACACGCTTCAGAGCC	0.433													26	53					0	0	0.009535	0	0	
OR51A4	401666	broad.mit.edu	37	11	4967774	4967774	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:4967774A>G	uc010qys.1	-	1	557	c.557T>C	c.(556-558)GTC>GCC	p.V186A		NM_001005329	NP_001005329	Q8NGJ6	O51A4_HUMAN	olfactory receptor, family 51, subfamily A,	186	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;3.22e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		CAACTTCATGACATCCTGGTG	0.408													31	107					0	0	0.006230	0	0	
OR52A4	390053	broad.mit.edu	37	11	5141901	5141901	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:5141901G>A	uc001lzz.1	-	1	908	c.908C>T	c.(907-909)ACA>ATA	p.T303I		NM_001005222	NP_001005222			olfactory receptor, family 52, subfamily A,											ovary(2)	2		Medulloblastoma(188;0.0049)|all_neural(188;0.0442)|Breast(177;0.0675)		Epithelial(150;1.7e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.2)		TCTCTAATGTGTTTGGTCTTT	0.353													7	74					0	0	0.003080	0	0	
OR52A4	390053	broad.mit.edu	37	11	5142071	5142071	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:5142071A>G	uc001lzz.1	-	1	738	c.738T>C	c.(736-738)TGT>TGC	p.C246C		NM_001005222	NP_001005222			olfactory receptor, family 52, subfamily A,											ovary(2)	2		Medulloblastoma(188;0.0049)|all_neural(188;0.0442)|Breast(177;0.0675)		Epithelial(150;1.7e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.2)		TATGGGGAATACATGTATTAA	0.343													6	130					0	0	0.001168	0	0	
OR51B6	390058	broad.mit.edu	37	11	5373588	5373588	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:5373588T>C	uc010qzb.1	+	1	851	c.851T>C	c.(850-852)TTT>TCT	p.F284S	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004750	NP_001004750	Q9H340	O51B6_HUMAN	olfactory receptor, family 51, subfamily B,	284	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TTCCCACCTTTTATGAACCCA	0.388													28	79					0	0	0.009535	0	0	
OR51Q1	390061	broad.mit.edu	37	11	5444163	5444163	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:5444163T>A	uc010qzd.1	+	1	733	c.733T>A	c.(733-735)TCC>ACC	p.S245T	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004757	NP_001004757	Q8NH59	O51Q1_HUMAN	olfactory receptor, family 51, subfamily Q,	245	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;2.18e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TAACTGCCTGTCCCACATTCT	0.493													5	72					0	0	0.000602	0	0	
OR52H1	390067	broad.mit.edu	37	11	5566215	5566215	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:5566215C>T	uc010qzh.1	-	1	539	c.539G>A	c.(538-540)CGC>CAC	p.R180H	HBG2_uc001mak.1_Intron	NM_001005289	NP_001005289	Q8NGJ2	O52H1_HUMAN	olfactory receptor, family 52, subfamily H,	180	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;5.33e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGGTATGATGCGTGTCCTGCA	0.488													6	52					0	0	0.001168	0	0	
TRIM22	10346	broad.mit.edu	37	11	5730360	5730360	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:5730360C>T	uc001mbr.2	+	8	1256	c.979C>T	c.(979-981)CGC>TGC	p.R327C	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron|TRIM22_uc009yes.2_Missense_Mutation_p.R323C|TRIM22_uc010qzm.1_Missense_Mutation_p.R155C|TRIM22_uc009yeu.2_Missense_Mutation_p.R138C|OR56B1_uc001mbs.1_Intron|OR56B1_uc009yev.1_Intron	NM_006074	NP_006065	Q8IYM9	TRI22_HUMAN	tripartite motif-containing 22	327	B30.2/SPRY.				immune response|interspecies interaction between organisms|protein trimerization|response to virus	Cajal body|Golgi apparatus|nuclear speck	ligase activity|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding				0		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;7.54e-09)|BRCA - Breast invasive adenocarcinoma(625;0.14)		GAAAACTGTACGCACCTGCAC	0.413													18	85					0	0	0.004990	0	0	
OR56A3	390083	broad.mit.edu	37	11	5969245	5969245	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:5969245C>T	uc010qzt.1	+	1	669	c.669C>T	c.(667-669)ACC>ACT	p.T223T		NM_001003443	NP_001003443	Q8NH54	O56A3_HUMAN	olfactory receptor, family 56, subfamily A,	223	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;9.41e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TCTCCTACACCTTCATTCTGC	0.522													8	148					0	0	0.006214	0	0	
OR52W1	120787	broad.mit.edu	37	11	6220850	6220850	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:6220850C>T	uc010qzz.1	+	1	397	c.397C>T	c.(397-399)CGT>TGT	p.R133C		NM_001005178	NP_001005178	Q6IF63	O52W1_HUMAN	olfactory receptor, family 52, subfamily W,	133	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;2.13e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGCAATAGGGCGTCCACTGCA	0.547													6	32					0	0	0.001984	0	0	
CNGA4	1262	broad.mit.edu	37	11	6261008	6261008	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:6261008C>T	uc001mco.2	+	3	366	c.259C>T	c.(259-261)CGC>TGC	p.R87C	CNGA4_uc010raa.1_Missense_Mutation_p.R47C|CNGA4_uc001mcn.2_Missense_Mutation_p.R47C	NM_001037329	NP_001032406	Q8IV77	CNGA4_HUMAN	cyclic nucleotide gated channel alpha 4	87	Cytoplasmic (Potential).				response to stimulus|sensory perception of smell		cAMP binding			skin(1)	1		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.04e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CATGGTGGTGCGCTTCCACAC	0.537													10	24					0	0	0.006214	0	0	
CNGA4	1262	broad.mit.edu	37	11	6261854	6261854	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:6261854C>T	uc001mco.2	+	4	937	c.830C>T	c.(829-831)GCG>GTG	p.A277V	CNGA4_uc010raa.1_Intron|CNGA4_uc001mcn.2_Missense_Mutation_p.A237V	NM_001037329	NP_001032406	Q8IV77	CNGA4_HUMAN	cyclic nucleotide gated channel alpha 4	277	Cytoplasmic (Potential).				response to stimulus|sensory perception of smell		cAMP binding			skin(1)	1		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.04e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ACTGCAGATGCGGCTTTCTAC	0.542													5	66					0	0	0.000602	0	0	
CNGA4	1262	broad.mit.edu	37	11	6262731	6262731	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:6262731C>T	uc001mco.2	+	5	1095	c.988C>T	c.(988-990)CTG>TTG	p.L330L	CNGA4_uc010raa.1_Silent_p.L99L|CNGA4_uc001mcn.2_Silent_p.L290L	NM_001037329	NP_001032406	Q8IV77	CNGA4_HUMAN	cyclic nucleotide gated channel alpha 4	330	Cytoplasmic (Potential).				response to stimulus|sensory perception of smell		cAMP binding			skin(1)	1		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.04e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GCCTGAGCGGCTGCGGGCAGA	0.552													26	59					0	0	0.003271	0	0	
CCKBR	887	broad.mit.edu	37	11	6291549	6291549	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:6291549C>T	uc001mcp.2	+	3	828	c.635C>T	c.(634-636)GCG>GTG	p.A212V	CCKBR_uc001mcq.2_Missense_Mutation_p.A140V|CCKBR_uc001mcr.2_Missense_Mutation_p.A212V|CCKBR_uc001mcs.2_Missense_Mutation_p.A212V|CCKBR_uc001mct.1_5'Flank	NM_176875	NP_795344	P32239	GASR_HUMAN	cholecystokinin B receptor	212	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|cell proliferation|digestion|elevation of cytosolic calcium ion concentration|feeding behavior|positive regulation of cell proliferation|sensory perception		1-phosphatidylinositol-3-kinase regulator activity|gastrin receptor activity|phosphatidylinositol phospholipase C activity|type B gastrin/cholecystokinin receptor binding			lung(5)|ovary(2)|breast(1)	8		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.139)	Pentagastrin(DB00183)	TGGCCCAGTGCGCGGGTCCGC	0.582													16	43					0	0	0.004007	0	0	
SMPD1	6609	broad.mit.edu	37	11	6413036	6413036	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:6413036C>T	uc001mcw.2	+	2	915	c.741C>T	c.(739-741)GGC>GGT	p.G247G	SMPD1_uc001mcv.1_Intron|SMPD1_uc009yex.2_RNA|SMPD1_uc001mcx.2_Silent_p.G247G|SMPD1_uc009yew.2_Silent_p.G246G	NM_000543	NP_000534	P17405	ASM_HUMAN	sphingomyelin phosphodiesterase 1, acid	245			G -> S (in NPDA and NPDB).		cell death|ceramide biosynthetic process|negative regulation of MAP kinase activity|nervous system development|positive regulation of protein dephosphorylation|signal transduction|sphingomyelin catabolic process|termination of signal transduction	lysosome	hydrolase activity, acting on glycosyl bonds|sphingomyelin phosphodiesterase activity				0		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;4.9e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)	Desipramine(DB01151)	GATACTGGGGCGAATACAGCA	0.652													7	29					0	0	0.001984	0	0	
HPX	3263	broad.mit.edu	37	11	6452540	6452540	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:6452540A>G	uc001mdg.2	-	10	1351	c.1290T>C	c.(1288-1290)GGT>GGC	p.G430G	HPX_uc001mdf.2_Silent_p.G176G|HPX_uc009yfc.2_RNA	NM_000613	NP_000604	P02790	HEMO_HUMAN	hemopexin precursor	430					cellular iron ion homeostasis|interspecies interaction between organisms	extracellular space	heme transporter activity|metal ion binding|protein binding				0		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;5.46e-08)|BRCA - Breast invasive adenocarcinoma(625;0.19)		ACAAATTGGGACCATGGATGA	0.542													6	79					0	0	0.001984	0	0	
TRIM3	10612	broad.mit.edu	37	11	6472626	6472626	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:6472626G>A	uc001mdh.2	-	9	1963	c.1576C>T	c.(1576-1578)CGA>TGA	p.R526*	TRIM3_uc001mdi.2_Nonsense_Mutation_p.R526*|TRIM3_uc010raj.1_Nonsense_Mutation_p.R407*|TRIM3_uc009yfd.2_Nonsense_Mutation_p.R526*|TRIM3_uc010rak.1_Nonsense_Mutation_p.R526*	NM_006458	NP_006449	O75382	TRIM3_HUMAN	tripartite motif-containing 3	526	NHL 2.				nervous system development|protein transport	early endosome	protein C-terminus binding|zinc ion binding	p.R526*(1)		central_nervous_system(2)|large_intestine(1)|ovary(1)|skin(1)	5		all_lung(207;9.97e-06)|Lung NSC(207;1.74e-05)|Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;9.34e-10)|Lung(200;0.0234)|LUSC - Lung squamous cell carcinoma(625;0.133)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GAGCGTCCTCGGACCCCAAAA	0.582													5	38					0	0	0.001984	0	0	
DCHS1	8642	broad.mit.edu	37	11	6654194	6654194	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:6654194C>T	uc001mem.1	-	6	2959	c.2549G>A	c.(2548-2550)CGC>CAC	p.R850H		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	850	Cadherin 8.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GTCCAGAGGGCGAAGTGTTTG	0.612													9	32					0	0	0.008291	0	0	
DCHS1	8642	broad.mit.edu	37	11	6661150	6661150	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:6661150G>A	uc001mem.1	-	2	2105	c.1695C>T	c.(1693-1695)AGC>AGT	p.S565S		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	565	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GCAGGGCCACGCTAACTGTGG	0.572													5	35					0	0	0.001168	0	0	
OR10A5	144124	broad.mit.edu	37	11	6867086	6867086	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:6867086G>T	uc001met.1	+	1	173	c.173G>T	c.(172-174)AGC>ATC	p.S58I		NM_178168	NP_835462	Q9H207	O10A5_HUMAN	olfactory receptor, family 10, subfamily A,	58	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.68e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		ATGCTACACAGCCCCATGTAC	0.473													35	121					1.32136e-16	1.44175e-16	0.008740	1	0	
OR2D2	120776	broad.mit.edu	37	11	6913396	6913396	+	Silent	SNP	G	A	A	rs140944764		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:6913396G>A	uc010rau.1	-	1	336	c.336C>T	c.(334-336)TGC>TGT	p.C112C		NM_003700	NP_003691	Q9H210	OR2D2_HUMAN	olfactory receptor, family 2, subfamily D,	112	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.68e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		CAAGAAGGGCGCACTGGGTAC	0.488													10	86					0	0	0.008291	0	0	
OR2D3	120775	broad.mit.edu	37	11	6942872	6942872	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:6942872G>A	uc010rav.1	+	1	640	c.640G>A	c.(640-642)GCC>ACC	p.A214T		NM_001004684	NP_001004684	Q8NGH3	OR2D3_HUMAN	olfactory receptor, family 2, subfamily D,	214	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.78e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		CACAGAAATGGCCATCTTTTC	0.468													12	39					0	0	0.001368	0	0	
RBMXL2	27288	broad.mit.edu	37	11	7111248	7111248	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:7111248G>A	uc001mfc.2	+	1	1084	c.897G>A	c.(895-897)CCG>CCA	p.P299P		NM_014469	NP_055284	O75526	HNRGT_HUMAN	testes-specific heterogenous nuclear	299	Arg/Gly/Pro-rich.					nucleus|ribonucleoprotein complex	nucleotide binding|RNA binding				0				Epithelial(150;5.14e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		GGGGGACACCGCCATCTTACG	0.662													3	5					0	0	0.004672	0	0	
OLFML1	283298	broad.mit.edu	37	11	7509587	7509587	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:7509587C>T	uc001mfi.2	+	2	711	c.359C>T	c.(358-360)GCA>GTA	p.A120V	uc001mff.1_Intron|OLFML1_uc001mfh.1_Missense_Mutation_p.A120V|OLFML1_uc010raz.1_Intron|OLFML1_uc010rba.1_Missense_Mutation_p.A120V	NM_198474	NP_940876	Q6UWY5	OLFL1_HUMAN	olfactomedin-like 1 precursor	120	Potential.					extracellular region				ovary(2)	2				Epithelial(150;6.96e-08)|BRCA - Breast invasive adenocarcinoma(625;0.194)		AAGACACTGGCAGAAATGTTG	0.463													5	78					0	0	0.000602	0	0	
OR5P3	120066	broad.mit.edu	37	11	7846790	7846790	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:7846790G>T	uc010rbg.1	-	1	730	c.730C>A	c.(730-732)CAC>AAC	p.H244N		NM_153445	NP_703146	Q8WZ94	OR5P3_HUMAN	olfactory receptor, family 5, subfamily P,	244	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1				Epithelial(150;8.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		GCAGTGAGGTGGGAGGTGCAG	0.502													11	49					3.45872e-05	3.64439e-05	0.004007	1	0	
OR5P3	120066	broad.mit.edu	37	11	7847232	7847232	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:7847232A>G	uc010rbg.1	-	1	288	c.288T>C	c.(286-288)GGT>GGC	p.G96G		NM_153445	NP_703146	Q8WZ94	OR5P3_HUMAN	olfactory receptor, family 5, subfamily P,	96	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1				Epithelial(150;8.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		GGGCCACACAACCAGCAACAG	0.537													8	104					0	0	0.006214	0	0	
NLRP10	338322	broad.mit.edu	37	11	7982197	7982197	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:7982197G>A	uc001mfv.1	-	2	979	c.962C>T	c.(961-963)GCG>GTG	p.A321V		NM_176821	NP_789791	Q86W26	NAL10_HUMAN	NLR family, pyrin domain containing 10	321	NACHT.						ATP binding	p.A321A(1)		lung(4)|ovary(2)|pancreas(1)|kidney(1)|skin(1)	9				Epithelial(150;1.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)		GAAGTACCTCGCCCTCTCCTC	0.512													31	66					0	0	0.005524	0	0	
TUB	7275	broad.mit.edu	37	11	8119372	8119372	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:8119372C>T	uc001mga.2	+	8	1146	c.997C>T	c.(997-999)CGG>TGG	p.R333W	TUB_uc010rbk.1_Missense_Mutation_p.R339W|TUB_uc001mfy.2_Missense_Mutation_p.R388W	NM_177972	NP_813977	P50607	TUB_HUMAN	tubby isoform b	333					phagocytosis|positive regulation of phagocytosis|response to stimulus	cytoplasm|extracellular region|nucleus|plasma membrane				ovary(1)	1		all_lung(207;6.91e-20)|Lung NSC(207;3.36e-17)		Epithelial(150;1.69e-62)|BRCA - Breast invasive adenocarcinoma(625;8.54e-06)|LUSC - Lung squamous cell carcinoma(625;0.000184)		CGGGAAACTGCGGTACTAGCA	0.552													30	67					0	0	0.003271	0	0	
LMO1	4004	broad.mit.edu	37	11	8248580	8248580	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:8248580G>A	uc001mgg.1	-	3	804	c.307C>T	c.(307-309)CGG>TGG	p.R103W	LMO1_uc009yfo.1_RNA|LMO1_uc001mgh.1_Missense_Mutation_p.R102W	NM_002315	NP_002306	P25800	RBTN1_HUMAN	LIM domain only 1	103	LIM zinc-binding 2.				cell proliferation|multicellular organismal development|positive regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding				0				Epithelial(150;1.59e-07)|BRCA - Breast invasive adenocarcinoma(625;0.203)		TCCCGGGCCCGCATCACCATC	0.632			T|A	TRD@	T-ALL|neuroblastoma	neuroblastoma							9	8					0	0	0.006214	0	0	
LMO1	4004	broad.mit.edu	37	11	8248591	8248591	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:8248591T>C	uc001mgg.1	-	3	793	c.296A>G	c.(295-297)GAG>GGG	p.E99G	LMO1_uc009yfo.1_RNA|LMO1_uc001mgh.1_Missense_Mutation_p.E98G	NM_002315	NP_002306	P25800	RBTN1_HUMAN	LIM domain only 1	99	LIM zinc-binding 2.				cell proliferation|multicellular organismal development|positive regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding				0				Epithelial(150;1.59e-07)|BRCA - Breast invasive adenocarcinoma(625;0.203)		CATCACCATCTCGAAGGCTGG	0.612			T|A	TRD@	T-ALL|neuroblastoma	neuroblastoma							10	11					0	0	0.000978	0	0	
IPO7	10527	broad.mit.edu	37	11	9457899	9457899	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:9457899C>T	uc001mho.2	+	20	2396	c.2254C>T	c.(2254-2256)CGT>TGT	p.R752C		NM_006391	NP_006382	O95373	IPO7_HUMAN	importin 7	752					interspecies interaction between organisms|signal transduction	Golgi apparatus|nuclear pore|soluble fraction	protein transporter activity|Ran GTPase binding|small GTPase regulator activity			lung(1)|breast(1)	2				all cancers(16;8.29e-09)|Epithelial(150;4.76e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0217)		GTGCAAAGGGCGTGGCATTGA	0.403													11	28					0	0	0.000978	0	0	
WEE1	7465	broad.mit.edu	37	11	9607038	9607038	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:9607038C>T	uc001mhs.2	+	8	1687	c.1434C>T	c.(1432-1434)GGC>GGT	p.G478G	WEE1_uc001mht.2_Silent_p.G264G	NM_003390	NP_003381	P30291	WEE1_HUMAN	WEE1 tyrosine kinase isoform 1	478	Protein kinase.				blood coagulation|cell cycle checkpoint|cell division|G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|mitosis|S phase of mitotic cell cycle	nucleoplasm	ATP binding|magnesium ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|breast(1)|skin(1)	5				all cancers(16;4.59e-09)|Epithelial(150;3.15e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0484)		TTGAAGAGGGCGATAGTCGTT	0.368													10	152					0	0	0.001855	0	0	
SBF2	81846	broad.mit.edu	37	11	9806818	9806818	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:9806818T>C	uc001mib.2	-	37	5223	c.5085A>G	c.(5083-5085)CTA>CTG	p.L1695L	uc001mhz.1_Intron|SBF2_uc001mid.2_Silent_p.L339L|SBF2_uc001mic.2_5'UTR|uc001mie.3_Intron	NM_030962	NP_112224	Q86WG5	MTMRD_HUMAN	SET binding factor 2	1695					myelination	cytoplasm|membrane	phosphatase activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				all cancers(16;2.88e-11)|Epithelial(150;3.61e-10)|BRCA - Breast invasive adenocarcinoma(625;0.00887)		GATAGGAAGGTAGGTTGGTAG	0.413													5	70					0	0	0.001168	0	0	
SBF2	81846	broad.mit.edu	37	11	9838554	9838554	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:9838554G>A	uc001mib.2	-	29	3949	c.3811C>T	c.(3811-3813)CGC>TGC	p.R1271C	SBF2_uc001mid.2_5'UTR	NM_030962	NP_112224	Q86WG5	MTMRD_HUMAN	SET binding factor 2	1271	Myotubularin phosphatase.				myelination	cytoplasm|membrane	phosphatase activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				all cancers(16;2.88e-11)|Epithelial(150;3.61e-10)|BRCA - Breast invasive adenocarcinoma(625;0.00887)		GTGCTAGAGCGAAGACTTGCC	0.512													20	63					0	0	0.001882	0	0	
AMPD3	272	broad.mit.edu	37	11	10524314	10524314	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:10524314C>T	uc001mio.1	+	13	2224	c.1889C>T	c.(1888-1890)GCC>GTC	p.A630V	AMPD3_uc010rbz.1_Missense_Mutation_p.A471V|AMPD3_uc001min.1_Missense_Mutation_p.A639V|AMPD3_uc009yfw.1_RNA|AMPD3_uc009yfz.2_RNA|AMPD3_uc001mip.1_Missense_Mutation_p.A637V|AMPD3_uc009yfy.2_Missense_Mutation_p.A630V	NM_001025389	NP_001020560	Q01432	AMPD3_HUMAN	adenosine monophosphate deaminase 3 isoform 1B	630					AMP catabolic process|purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			large_intestine(1)|ovary(1)	2				all cancers(16;1.14e-08)|Epithelial(150;2.83e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0291)		ATCCCCATTGCCATGTCTCCT	0.428													8	143					0	0	0.003080	0	0	
AMPD3	272	broad.mit.edu	37	11	10527345	10527345	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:10527345G>A	uc001mio.1	+	15	2553	c.2218G>A	c.(2218-2220)GCA>ACA	p.A740T	AMPD3_uc010rbz.1_Missense_Mutation_p.A581T|AMPD3_uc001min.1_Missense_Mutation_p.A749T|AMPD3_uc009yfw.1_RNA|AMPD3_uc009yfz.2_RNA|AMPD3_uc001mip.1_Missense_Mutation_p.A747T|AMPD3_uc009yfy.2_Missense_Mutation_p.A740T	NM_001025389	NP_001020560	Q01432	AMPD3_HUMAN	adenosine monophosphate deaminase 3 isoform 1B	740					AMP catabolic process|purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			large_intestine(1)|ovary(1)	2				all cancers(16;1.14e-08)|Epithelial(150;2.83e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0291)		GATCCGGATGGCATTCCGATA	0.428													35	70					0	0	0.004289	0	0	
ARNTL	406	broad.mit.edu	37	11	13402723	13402723	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:13402723G>A	uc001mkr.2	+	18	1947	c.1539G>A	c.(1537-1539)TCG>TCA	p.S513S	ARNTL_uc001mko.2_Silent_p.S469S|ARNTL_uc001mkp.2_Silent_p.S512S|ARNTL_uc001mkq.2_Silent_p.S512S|ARNTL_uc001mks.2_Silent_p.S470S|ARNTL_uc001mkt.2_Silent_p.S513S|ARNTL_uc001mku.2_RNA|ARNTL_uc001mkw.2_Silent_p.S470S|ARNTL_uc001mkx.2_Silent_p.S511S|ARNTL_uc001mky.2_Silent_p.S51S	NM_001178	NP_001169	O00327	BMAL1_HUMAN	aryl hydrocarbon receptor nuclear	513				SP -> LR (in Ref. 2; AAC51213).	circadian rhythm|positive regulation of transcription from RNA polymerase II promoter	transcription factor complex	aryl hydrocarbon receptor binding|DNA binding|Hsp90 protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity				0				Epithelial(150;0.0243)		GAGGGTCATCGCCTTCTAGCT	0.478													26	64					0	0	0.003271	0	0	
SPON1	10418	broad.mit.edu	37	11	14276113	14276113	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:14276113G>A	uc001mle.2	+	9	1468	c.930G>A	c.(928-930)ACG>ACA	p.T310T		NM_006108	NP_006099	Q9HCB6	SPON1_HUMAN	spondin 1, extracellular matrix protein	310	Spondin.				cell adhesion	extracellular space|proteinaceous extracellular matrix	protein binding				0				Epithelial(150;0.00898)		TGGACAGAACGCGCCATTTAA	0.512													7	30					0	0	0.003080	0	0	
PLEKHA7	144100	broad.mit.edu	37	11	16837748	16837748	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:16837748C>T	uc001mmo.2	-	12	1945	c.1930G>A	c.(1930-1932)GCT>ACT	p.A644T	PLEKHA7_uc010rcu.1_Missense_Mutation_p.A644T|PLEKHA7_uc010rcv.1_Missense_Mutation_p.A218T|PLEKHA7_uc001mmn.2_Missense_Mutation_p.A352T	NM_175058	NP_778228	Q6IQ23	PKHA7_HUMAN	pleckstrin homology domain containing, family A	644	Interaction with CTNND1.				epithelial cell-cell adhesion|zonula adherens maintenance	centrosome|zonula adherens	delta-catenin binding			skin(2)|central_nervous_system(1)	3						AAACTGGGAGCGCTGACGGTG	0.308													14	22					0	0	0.003163	0	0	
PLEKHA7	144100	broad.mit.edu	37	11	16892710	16892710	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:16892710C>T	uc001mmo.2	-	4	256	c.241G>A	c.(241-243)GCA>ACA	p.A81T	PLEKHA7_uc010rcu.1_Missense_Mutation_p.A81T	NM_175058	NP_778228	Q6IQ23	PKHA7_HUMAN	pleckstrin homology domain containing, family A	81	WW 2.				epithelial cell-cell adhesion|zonula adherens maintenance	centrosome|zonula adherens	delta-catenin binding			skin(2)|central_nervous_system(1)	3						TGCCTGAATGCTGTGGTCTGC	0.428													19	38					0	0	0.007413	0	0	
TPH1	7166	broad.mit.edu	37	11	18048170	18048170	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:18048170G>A	uc001mnp.2	-	6	696	c.670C>T	c.(670-672)CGT>TGT	p.R224C	TPH1_uc009yhe.2_RNA	NM_004179	NP_004170	P17752	TPH1_HUMAN	tryptophan hydroxylase 1	224					aromatic amino acid family metabolic process|hormone biosynthetic process|serotonin biosynthetic process	cytosol	amino acid binding|iron ion binding|tryptophan 5-monooxygenase activity				0					L-Tryptophan(DB00150)|Tetrahydrobiopterin(DB00360)	AAACCTGTACGCTCTGCAAAG	0.423													10	49					0	0	0.001855	0	0	
TMEM86A	144110	broad.mit.edu	37	11	18722705	18722705	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:18722705G>A	uc001moz.1	+	2	330	c.247G>A	c.(247-249)GCC>ACC	p.A83T		NM_153347	NP_699178	Q8N2M4	TM86A_HUMAN	transmembrane protein 86A	83	Helical; (Potential).					integral to membrane				ovary(1)	1						TGTAGGTGACGCCTTCCTCAT	0.617													20	48					0	0	0.010504	0	0	
NAV2	89797	broad.mit.edu	37	11	20077375	20077375	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:20077375G>A	uc010rdm.1	+	20	5133	c.4772G>A	c.(4771-4773)AGC>AAC	p.S1591N	NAV2_uc001mpp.2_Missense_Mutation_p.S1504N|NAV2_uc001mpr.3_Missense_Mutation_p.S1568N|NAV2_uc001mpt.2_Missense_Mutation_p.S617N|NAV2_uc009yhx.2_Missense_Mutation_p.S632N|NAV2_uc009yhy.1_Missense_Mutation_p.S530N|NAV2_uc009yhz.2_Missense_Mutation_p.S213N|NAV2_uc001mpu.2_Missense_Mutation_p.S6N	NM_145117	NP_660093	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 2	1591	Ser-rich.					nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						AGGACTCACAGCCTCTCCAAT	0.502													9	47					0	0	0.008291	0	0	
MPPED2	744	broad.mit.edu	37	11	30601840	30601840	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:30601840C>T	uc001msr.2	-	1	201	c.81G>A	c.(79-81)ACG>ACA	p.T27T	MPPED2_uc001msq.3_Silent_p.T27T|MPPED2_uc009yji.2_5'UTR	NM_001584	NP_001575	Q15777	MPPD2_HUMAN	metallophosphoesterase domain containing 2	27					nervous system development		hydrolase activity|metal ion binding			skin(1)	1						TGTTGTAGTGCGTGAATGCCT	0.428													15	51					0	0	0.004007	0	0	
EIF3M	10480	broad.mit.edu	37	11	32615446	32615446	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:32615446G>A	uc001mtu.2	+	6	611	c.568G>A	c.(568-570)GGA>AGA	p.G190R	EIF3M_uc010ref.1_Missense_Mutation_p.G58R	NM_006360	NP_006351	Q7L2H7	EIF3M_HUMAN	eukaryotic translation initiation factor 3,	190						eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			ovary(1)|breast(1)|skin(1)	3	Breast(20;0.109)					GGAATTGCTCGGAAGTTACAC	0.378													24	67					0	0	0.004656	0	0	
QSER1	79832	broad.mit.edu	37	11	32975681	32975681	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:32975681C>T	uc001mty.2	+	5	4336	c.4069C>T	c.(4069-4071)CGT>TGT	p.R1357C	QSER1_uc001mtz.1_Missense_Mutation_p.R1118C|QSER1_uc001mua.2_Missense_Mutation_p.R862C	NM_001076786	NP_001070254	Q2KHR3	QSER1_HUMAN	glutamine and serine rich 1	1357										ovary(3)|central_nervous_system(2)|skin(1)	6	Breast(20;0.158)					ATACAGAGAGCGTGATGAATT	0.433													20	78					0	0	0.002299	0	0	
CSTF3	1479	broad.mit.edu	37	11	33120306	33120306	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:33120306C>T	uc001muh.2	-	13	1224	c.1058G>A	c.(1057-1059)CGC>CAC	p.R353H	TCP11L1_uc001muf.1_Intron	NM_001326	NP_001317	Q12996	CSTF3_HUMAN	cleavage stimulation factor subunit 3 isoform 1	353					mRNA cleavage|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nucleoplasm	protein binding|RNA binding				0						ATACTTCATGCGACTCTAAGG	0.398													27	160					0	0	0.009535	0	0	
C11orf41	25758	broad.mit.edu	37	11	33565790	33565790	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:33565790A>G	uc001mup.3	+	1	1914	c.1790A>G	c.(1789-1791)CAC>CGC	p.H597R	C11orf41_uc001mun.1_Missense_Mutation_p.H597R	NM_012194	NP_036326	Q6ZVL6	CK041_HUMAN	hypothetical protein LOC25758	597						integral to membrane				ovary(2)	2						TTGGGATATCACTCTGCTGCT	0.483													6	114					0	0	0.001984	0	0	
LMO2	4005	broad.mit.edu	37	11	33881013	33881013	+	Silent	SNP	G	A	A	rs150885335		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:33881013G>A	uc001mve.2	-	3	805	c.366C>T	c.(364-366)TGC>TGT	p.C122C	LMO2_uc001mvc.2_Silent_p.C115C|LMO2_uc001mvd.2_Silent_p.C115C|LMO2_uc010rel.1_Silent_p.C122C|LMO2_uc010rem.1_Silent_p.C191C	NM_001142316	NP_001135788	P25791	RBTN2_HUMAN	LIM domain only 2 isoform 2	122	LIM zinc-binding 2.				multicellular organismal development	nucleus	protein binding|zinc ion binding			lung(1)	1						GACAGGCGGCGCATTTGAAAC	0.488			T	TRD@	T-ALL								25	46					0	0	0.003954	0	0	
ABTB2	25841	broad.mit.edu	37	11	34218942	34218942	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:34218942G>A	uc001mvl.1	-	3	846	c.616C>T	c.(616-618)CGG>TGG	p.R206W		NM_145804	NP_665803	Q8N961	ABTB2_HUMAN	ankyrin repeat and BTB (POZ) domain containing	206							DNA binding			central_nervous_system(1)|skin(1)	2		Acute lymphoblastic leukemia(5;0.0508)|all_hematologic(20;0.0691)				TGTGGACACCGCAGAAAGTAG	0.647													6	29					0	0	0.004482	0	0	
ELF5	2001	broad.mit.edu	37	11	34515211	34515211	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:34515211C>T	uc001mvo.1	-	3	430	c.200G>A	c.(199-201)CGC>CAC	p.R67H	ELF5_uc001mvp.1_Missense_Mutation_p.R57H|ELF5_uc009ykd.1_Intron|ELF5_uc001mvq.1_Missense_Mutation_p.R57H	NM_198381	NP_938195	Q9UKW6	ELF5_HUMAN	E74-like factor 5 ESE-2a	67	PNT.				cell proliferation|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1		Acute lymphoblastic leukemia(5;0.0087)|all_hematologic(20;0.0384)				CCACACATGGCGCTTAGTCCA	0.527											OREG0020879	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	35					0	0	0.006214	0	0	
EHF	26298	broad.mit.edu	37	11	34680177	34680177	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:34680177C>T	uc001mvr.1	+	8	816	c.705C>T	c.(703-705)GGC>GGT	p.G235G	EHF_uc009yke.1_Silent_p.G212G|EHF_uc009ykf.1_Silent_p.G238G	NM_012153	NP_036285	Q9NZC4	EHF_HUMAN	ets homologous factor	235	ETS.				cell proliferation|epithelial cell differentiation|multicellular organismal development|positive regulation of transcription, DNA-dependent		protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_hematologic(20;0.117)	Epithelial(1;0.055)|all cancers(1;0.137)|STAD - Stomach adenocarcinoma(6;0.235)			GATCTGAGGGCGTCTTCAGGT	0.488													14	74					0	0	0.003163	0	0	
PDHX	8050	broad.mit.edu	37	11	34988196	34988196	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:34988196C>A	uc001mvt.2	+	6	1177	c.651C>A	c.(649-651)CTC>CTA	p.L217L	PDHX_uc010rep.1_Silent_p.L202L|PDHX_uc010req.1_Intron	NM_003477	NP_003468	O00330	ODPX_HUMAN	pyruvate dehydrogenase complex, component X	217					pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	acyltransferase activity			kidney(1)	1	all_epithelial(35;0.115)|Lung NSC(22;0.218)|all_lung(20;0.242)	all_hematologic(20;0.124)	STAD - Stomach adenocarcinoma(6;0.00113)			GGGATGCTCTCAAACTTGTCC	0.468													35	106					1.47244e-24	1.61573e-24	0.006230	1	0	
PDHX	8050	broad.mit.edu	37	11	34988232	34988232	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:34988232C>T	uc001mvt.2	+	6	1213	c.687C>T	c.(685-687)ACC>ACT	p.T229T	PDHX_uc010rep.1_Silent_p.T214T|PDHX_uc010req.1_Intron	NM_003477	NP_003468	O00330	ODPX_HUMAN	pyruvate dehydrogenase complex, component X	229					pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	acyltransferase activity			kidney(1)	1	all_epithelial(35;0.115)|Lung NSC(22;0.218)|all_lung(20;0.242)	all_hematologic(20;0.124)	STAD - Stomach adenocarcinoma(6;0.00113)			GCAAGATTACCGAGTCCAGAC	0.502													23	77					0	0	0.003330	0	0	
LDLRAD3	143458	broad.mit.edu	37	11	36250736	36250736	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:36250736C>T	uc001mwk.1	+	6	864	c.827C>T	c.(826-828)CCG>CTG	p.P276L	LDLRAD3_uc010rey.1_Missense_Mutation_p.P227L|LDLRAD3_uc010rez.1_Missense_Mutation_p.P155L|LDLRAD3_uc010rfa.1_RNA	NM_174902	NP_777562	Q86YD5	LRAD3_HUMAN	low density lipoprotein receptor class A domain	276	Poly-Pro.|Cytoplasmic (Potential).					integral to membrane	receptor activity			central_nervous_system(1)	1	all_lung(20;0.089)|Lung NSC(22;0.175)|all_epithelial(35;0.177)	all_hematologic(20;0.124)				CTTCCTCCACCGCCCTACTCT	0.617													20	75					0	0	0.003330	0	0	
LDLRAD3	143458	broad.mit.edu	37	11	36250849	36250849	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:36250849G>A	uc001mwk.1	+	6	977	c.940G>A	c.(940-942)GTG>ATG	p.V314M	LDLRAD3_uc010rey.1_Missense_Mutation_p.V265M|LDLRAD3_uc010rez.1_Missense_Mutation_p.V193M|LDLRAD3_uc010rfa.1_RNA	NM_174902	NP_777562	Q86YD5	LRAD3_HUMAN	low density lipoprotein receptor class A domain	314	Cytoplasmic (Potential).					integral to membrane	receptor activity			central_nervous_system(1)	1	all_lung(20;0.089)|Lung NSC(22;0.175)|all_epithelial(35;0.177)	all_hematologic(20;0.124)				CCTCCTGAGCGTGGAAGACAC	0.662													4	24					0	0	0.000602	0	0	
COMMD9	29099	broad.mit.edu	37	11	36300147	36300147	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:36300147C>T	uc001mwn.3	-	3	234	c.197G>A	c.(196-198)CGC>CAC	p.R66H	COMMD9_uc009ykj.2_Missense_Mutation_p.R24H|COMMD9_uc010rfb.1_Missense_Mutation_p.R66H	NM_014186	NP_054905	Q9P000	COMD9_HUMAN	COMM domain containing 9 isoform 1	66										ovary(1)	1	all_lung(20;0.211)	all_hematologic(20;0.107)				CCTAGTGAGGCGGTGCAGAGC	0.567													4	17					0	0	0.000602	0	0	
RAG1	5896	broad.mit.edu	37	11	36595270	36595270	+	Missense_Mutation	SNP	G	A	A	rs140648865		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:36595270G>A	uc001mwu.3	+	2	540	c.416G>A	c.(415-417)GGC>GAC	p.G139D	RAG1_uc001mwt.2_RNA	NM_000448	NP_000439	P15918	RAG1_HUMAN	recombination activating gene 1	139	Interaction with importin alpha-1.				histone monoubiquitination|immune response|pre-B cell allelic exclusion|protein autoubiquitination|T cell differentiation in thymus|V(D)J recombination	nucleus	endonuclease activity|histone binding|protein homodimerization activity|sequence-specific DNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|pancreas(1)|lung(1)|kidney(1)|skin(1)	5	all_lung(20;0.226)	all_hematologic(20;0.107)				AAAACCCTAGGCCTTTTACGA	0.498									Familial_Hemophagocytic_Lymphohistiocytosis				21	60					0	0	0.002299	0	0	
LRRC4C	57689	broad.mit.edu	37	11	40136706	40136706	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:40136706T>C	uc001mxa.1	-	2	3101	c.1137A>G	c.(1135-1137)ACA>ACG	p.T379T	LRRC4C_uc001mxc.1_Silent_p.T375T|LRRC4C_uc001mxd.1_Silent_p.T375T|LRRC4C_uc001mxb.1_Silent_p.T375T	NM_020929	NP_065980	Q9HCJ2	LRC4C_HUMAN	netrin-G1 ligand precursor	379	Ig-like C2-type.				regulation of axonogenesis	integral to membrane	protein binding			ovary(4)|skin(3)|central_nervous_system(1)	8		all_lung(304;0.0575)|Lung NSC(402;0.138)				ATGTCAGGGATGTGGAGGCCC	0.493													18	46					0	0	0.007413	0	0	
TTC17	55761	broad.mit.edu	37	11	43513699	43513699	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:43513699G>A	uc001mxi.2	+	23	3294	c.3280G>A	c.(3280-3282)GTC>ATC	p.V1094I	TTC17_uc010rfj.1_Missense_Mutation_p.V1094I|TTC17_uc001mxl.2_Missense_Mutation_p.V150I|TTC17_uc001mxm.2_Missense_Mutation_p.V75I	NM_018259	NP_060729	Q96AE7	TTC17_HUMAN	tetratricopeptide repeat domain 17	1094	TPR 6.						binding			ovary(5)	5						TCTGGGCAATGTCTACGTGGC	0.478													33	90					0	0	0.003271	0	0	
ACCS	84680	broad.mit.edu	37	11	44099449	44099449	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:44099449G>A	uc009yks.1	+	8	853	c.709G>A	c.(709-711)GCC>ACC	p.A237T	EXT2_uc010rfo.1_Intron|ACCS_uc010rfm.1_3'UTR|ACCS_uc001mxx.2_Missense_Mutation_p.A237T	NM_001127219	NP_001120691	Q96QU6	1A1L1_HUMAN	1-aminocyclopropane-1-carboxylate synthase	237							1-aminocyclopropane-1-carboxylate synthase activity|protein homodimerization activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			breast(2)|ovary(1)|lung(1)	4						GCTGGAGATGGCCCTGAGAGA	0.562													6	27					0	0	0.001168	0	0	
TSPAN18	90139	broad.mit.edu	37	11	44931414	44931414	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:44931414C>T	uc001mye.3	+	3	383	c.222C>T	c.(220-222)TGC>TGT	p.C74C	TP53I11_uc001myf.1_Intron|TSPAN18_uc001myg.2_Silent_p.C74C	NM_130783	NP_570139	Q96SJ8	TSN18_HUMAN	tetraspanin 18 isoform 2	74	Cytoplasmic (Potential).					integral to membrane					0						TGGGCTGCTGCGGGGCCGTCC	0.637													4	14					0	0	0.009096	0	0	
MAPK8IP1	9479	broad.mit.edu	37	11	45925641	45925641	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:45925641G>A	uc001nbr.2	+	7	1765	c.1595G>A	c.(1594-1596)CGC>CAC	p.R532H		NM_005456	NP_005447	Q9UQF2	JIP1_HUMAN	mitogen-activated protein kinase 8 interacting	532	SH3.				vesicle-mediated transport	nucleus|perinuclear region of cytoplasm	kinesin binding|MAP-kinase scaffold activity|protein kinase inhibitor activity			ovary(2)|breast(1)|skin(1)	4				GBM - Glioblastoma multiforme(35;0.231)		TACAACATGCGCACTGGTGCC	0.592													5	37					0	0	0.000602	0	0	
PEX16	9409	broad.mit.edu	37	11	45931824	45931824	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:45931824T>C	uc001nbu.2	-	11	1304	c.992A>G	c.(991-993)TAC>TGC	p.Y331C	C11orf94_uc001nbs.3_5'Flank|PEX16_uc001nbt.2_Intron	NM_004813	NP_004804	Q9Y5Y5	PEX16_HUMAN	peroxisomal biogenesis factor 16 isoform 1	331	Interaction with PEX19.|Cytoplasmic (Potential).				ER-dependent peroxisome organization|peroxisome membrane biogenesis|protein import into peroxisome matrix|protein import into peroxisome membrane	endoplasmic reticulum membrane|integral to peroxisomal membrane	protein C-terminus binding			ovary(2)|skin(1)	3				GBM - Glioblastoma multiforme(35;0.223)		ACTGTAGAAGTAGATTTTCTG	0.612													7	31					0	0	0.003080	0	0	
PHF21A	51317	broad.mit.edu	37	11	45959804	45959804	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:45959804G>A	uc001ncc.3	-	15	2133	c.1509C>T	c.(1507-1509)TGC>TGT	p.C503C	PHF21A_uc001ncb.3_Silent_p.C457C|PHF21A_uc009ykx.2_Silent_p.C457C|PHF21A_uc001nca.1_Silent_p.C239C	NM_001101802	NP_001095272	Q96BD5	PF21A_HUMAN	BRAF35/HDAC2 complex isoform a	503	Required for transcriptional repression.|PHD-type.				blood coagulation|chromatin modification|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription, DNA-dependent|transcription, DNA-dependent	histone deacetylase complex	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2						AACATGTGTCGCACATCAGTA	0.443													20	65					0	0	0.002299	0	0	
CHRM4	1132	broad.mit.edu	37	11	46408103	46408103	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:46408103G>A	uc001nct.1	-	1	5	c.5C>T	c.(4-6)GCC>GTC	p.A2V		NM_000741	NP_000732	P08173	ACM4_HUMAN	cholinergic receptor, muscarinic 4	2	Extracellular (By similarity).				cell proliferation	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity				0				GBM - Glioblastoma multiforme(35;0.0254)|Lung(87;0.14)	Atropine(DB00572)|Benzquinamide(DB00767)|Cryptenamine(DB00785)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Thiethylperazine(DB00372)|Tropicamide(DB00809)	TGTGAAGTTGGCCATGTTGGT	0.557													15	45					0	0	0.007413	0	0	
AMBRA1	55626	broad.mit.edu	37	11	46419227	46419227	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:46419227G>A	uc010rgu.1	-	18	4030	c.3670C>T	c.(3670-3672)CGA>TGA	p.R1224*	AMBRA1_uc010rgt.1_3'UTR|AMBRA1_uc009ylc.1_Nonsense_Mutation_p.R1195*|AMBRA1_uc001ncu.1_Nonsense_Mutation_p.R1134*|AMBRA1_uc001ncv.2_Nonsense_Mutation_p.R1227*|AMBRA1_uc001ncw.2_Nonsense_Mutation_p.R1105*|AMBRA1_uc001ncx.2_Nonsense_Mutation_p.R1164*	NM_017749	NP_060219	Q9C0C7	AMRA1_HUMAN	activating molecule in beclin-1-regulated	1224					autophagy|cell differentiation|nervous system development	autophagic vacuole|cytoplasmic vesicle				large_intestine(1)|ovary(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(35;0.0435)|Lung(87;0.182)		CTTAGGCCTCGCTCTGCCAGT	0.692													8	11					0	0	0.000978	0	0	
HARBI1	283254	broad.mit.edu	37	11	46637365	46637365	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:46637365C>T	uc001ncy.2	-	2	671	c.423G>A	c.(421-423)ATG>ATA	p.M141I	KIAA0652_uc009yld.2_5'Flank|KIAA0652_uc001nda.2_5'Flank|KIAA0652_uc001ndb.2_5'Flank|KIAA0652_uc001ncz.2_5'Flank|KIAA0652_uc001ndc.2_5'Flank|KIAA0652_uc010rgv.1_5'Flank	NM_173811	NP_776172	Q96MB7	HARB1_HUMAN	harbinger transposase derived 1	141						cytoplasm|nucleus	metal ion binding|nuclease activity				0						TCACCCCTGGCATCCCTGCCA	0.507													55	183					0	0	0.003610	0	0	
CKAP5	9793	broad.mit.edu	37	11	46797803	46797803	+	Splice_Site	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:46797803A>G	uc001ndi.1	-	24	3101	c.2991_splice	c.e24+1	p.E997_splice	CKAP5_uc009ylg.1_Splice_Site_p.E883_splice|CKAP5_uc001ndj.1_Splice_Site_p.E997_splice	NM_001008938	NP_001008938	Q14008	CKAP5_HUMAN	colonic and hepatic tumor over-expressed protein						cell division|centrosome organization|establishment or maintenance of microtubule cytoskeleton polarity|G2/M transition of mitotic cell cycle|mitotic prometaphase|RNA transport|spindle organization	centrosome|cytosol	protein binding|protein binding			ovary(1)|skin(1)	2						TATGATACTAACCTCTTGCCT	0.403													5	46					0	0	0.001168	0	0	
LRP4	4038	broad.mit.edu	37	11	46880599	46880599	+	Nonsense_Mutation	SNP	G	A	A	rs147138337		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:46880599G>A	uc001ndn.3	-	38	5799	c.5653C>T	c.(5653-5655)CGA>TGA	p.R1885*	uc001ndl.2_Intron|LRP4_uc001ndm.3_Nonsense_Mutation_p.R127*	NM_002334	NP_002325	O75096	LRP4_HUMAN	low density lipoprotein receptor-related protein	1885	Cytoplasmic (Potential).				endocytosis|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane	calcium ion binding|receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4				Lung(87;0.159)		AGAGAGCCTCGTCTTTCTGGA	0.567													8	28					0	0	0.008291	0	0	
ARFGAP2	84364	broad.mit.edu	37	11	47188378	47188378	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:47188378C>T	uc001ndt.2	-	13	1280	c.1265G>A	c.(1264-1266)CGT>CAT	p.R422H	ARFGAP2_uc010rha.1_Missense_Mutation_p.R153H|ARFGAP2_uc010rhb.1_Missense_Mutation_p.R394H|ARFGAP2_uc001ndu.2_Missense_Mutation_p.R286H|ARFGAP2_uc010rhc.1_Missense_Mutation_p.R153H	NM_032389	NP_115765	Q8N6H7	ARFG2_HUMAN	ADP-ribosylation factor GTPase activating	422	Required for interaction with coatomer.				protein transport|regulation of ARF GTPase activity|vesicle-mediated transport	Golgi membrane|nucleolus|plasma membrane	ARF GTPase activator activity|zinc ion binding			ovary(1)	1						GAATTTCTGACGCGCCTCACT	0.577													44	120					0	0	0.003610	0	0	
NR1H3	10062	broad.mit.edu	37	11	47282972	47282972	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:47282972G>A	uc009ylm.2	+	5	901	c.680G>A	c.(679-681)CGC>CAC	p.R227H	NR1H3_uc009yll.1_Missense_Mutation_p.R233H|NR1H3_uc010rhk.1_Missense_Mutation_p.R233H|NR1H3_uc001nek.2_Missense_Mutation_p.R182H|NR1H3_uc001nej.2_Missense_Mutation_p.R227H|NR1H3_uc001nel.2_Missense_Mutation_p.R182H|NR1H3_uc001nen.3_Missense_Mutation_p.R227H|NR1H3_uc001nem.2_Missense_Mutation_p.R227H|NR1H3_uc001nep.2_Missense_Mutation_p.R136H	NM_005693	NP_005684	Q13133	NR1H3_HUMAN	nuclear receptor subfamily 1, group H, member 3	227	Ligand-binding (Potential).				apoptotic cell clearance|cellular response to lipopolysaccharide|cholesterol homeostasis|negative regulation of cholesterol storage|negative regulation of inflammatory response|negative regulation of interferon-gamma-mediated signaling pathway|negative regulation of lipid transport|negative regulation of macrophage activation|negative regulation of pancreatic juice secretion|negative regulation of pinocytosis|negative regulation of secretion of lysosomal enzymes|negative regulation of transcription from RNA polymerase II promoter|positive regulation of cellular protein metabolic process|positive regulation of cholesterol efflux|positive regulation of cholesterol homeostasis|positive regulation of fatty acid biosynthetic process|positive regulation of lipoprotein lipase activity|positive regulation of receptor biosynthetic process|positive regulation of toll-like receptor 4 signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of triglyceride biosynthetic process|regulation of circadian rhythm|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to progesterone stimulus|triglyceride homeostasis	nuclear chromatin|nucleoplasm	cholesterol binding|steroid hormone receptor activity|sterol response element binding|transcription coactivator activity|zinc ion binding			ovary(2)|lung(1)	3						TGTAACCGGCGCTCCTTTTCT	0.617													19	33					0	0	0.003954	0	0	
MYBPC3	4607	broad.mit.edu	37	11	47367812	47367812	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:47367812G>A	uc001nfa.3	-	12	1091	c.1036C>T	c.(1036-1038)CGC>TGC	p.R346C		NM_000256	NP_000247	Q14896	MYPC3_HUMAN	myosin binding protein C, cardiac	346					cardiac muscle contraction|cell adhesion|muscle filament sliding|regulation of muscle filament sliding|regulation of striated muscle contraction|ventricular cardiac muscle tissue morphogenesis	C zone|cytosol|striated muscle myosin thick filament	actin binding|ATPase activator activity|metal ion binding|myosin heavy chain binding|structural constituent of muscle|titin binding			ovary(2)|central_nervous_system(1)	3				Lung(87;0.176)		AGCATGCCGCGCAGGTCAGTG	0.622													5	19					0	0	0.000602	0	0	
CELF1	10658	broad.mit.edu	37	11	47505972	47505972	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:47505972C>T	uc001nfl.2	-	4	424	c.414G>A	c.(412-414)CGG>CGA	p.R138R	CELF1_uc001nfm.2_Silent_p.R138R|CELF1_uc001nfn.2_Silent_p.R138R|CELF1_uc001nfo.1_Silent_p.R164R|CELF1_uc010rhm.1_Silent_p.R137R|CELF1_uc001nfp.2_Silent_p.R165R|CELF1_uc001nfq.1_Silent_p.R138R|CELF1_uc001nfr.1_Silent_p.R138R	NM_001025596	NP_001020767	Q92879	CELF1_HUMAN	CUG triplet repeat, RNA-binding protein 1	138	RRM 2.				embryo development|mRNA splice site selection|regulation of RNA splicing|RNA interference	cytoplasm|nucleus|ribonucleoprotein complex	BRE binding|mRNA binding|nucleotide binding|translation repressor activity, nucleic acid binding			central_nervous_system(2)|ovary(1)	3						CCCGCAATATCCGGCATTCTT	0.398													4	99					0	0	0.009096	0	0	
PTPRJ	5795	broad.mit.edu	37	11	48145282	48145282	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:48145282G>A	uc001ngp.3	+	5	1089	c.734G>A	c.(733-735)AGC>AAC	p.S245N	PTPRJ_uc001ngo.3_Missense_Mutation_p.S245N	NM_002843	NP_002834	Q12913	PTPRJ_HUMAN	protein tyrosine phosphatase, receptor type, J	245	Extracellular (Potential).|Fibronectin type-III 2.				contact inhibition|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of T cell receptor signaling pathway|negative regulation of vascular permeability|platelet-derived growth factor receptor signaling pathway|positive chemotaxis|positive regulation of focal adhesion assembly|positive regulation of protein kinase B signaling cascade|positive regulation of survival gene product expression	cell surface|cell-cell junction|immunological synapse|integral to plasma membrane|ruffle membrane	beta-catenin binding|delta-catenin binding|gamma-catenin binding|mitogen-activated protein kinase binding|platelet-derived growth factor receptor binding|protein tyrosine phosphatase activity			breast(3)|kidney(3)|ovary(1)|skin(1)	8						AGCATTGGAAGCCATGAGGAG	0.512													16	33					0	0	0.002299	0	0	
LOC440040	440040	broad.mit.edu	37	11	49598046	49598046	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:49598046C>A	uc010rhy.1	+	2	637	c.159C>A	c.(157-159)CCC>CCA	p.P53P	LOC440040_uc009ymb.2_Silent_p.P53P	NR_027044				SubName: Full=cDNA FLJ60249, highly similar to Metabotropic glutamate receptor 5;												0						ATTCAGACCCCACACTCTTGC	0.522													9	18					1.12685e-05	1.18926e-05	0.004482	1	0	
TRIM48	79097	broad.mit.edu	37	11	55035844	55035844	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:55035844T>C	uc010rid.1	+	4	660	c.574T>C	c.(574-576)TAC>CAC	p.Y192H		NM_024114	NP_077019	Q8IWZ4	TRI48_HUMAN	tripartite motif-containing 48	176						intracellular	zinc ion binding				0						AGACATATTATACAGGTGAGT	0.338													7	83					0	0	0.004482	0	0	
OR4A16	81327	broad.mit.edu	37	11	55110982	55110982	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:55110982A>C	uc010rie.1	+	1	306	c.306A>C	c.(304-306)GAA>GAC	p.E102D		NM_001005274	NP_001005274	Q8NH70	O4A16_HUMAN	olfactory receptor, family 4, subfamily A,	102	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(2)|pancreas(1)	3						TCTTCATAGAACACTTACTTG	0.438													51	111					0	0	0.003610	0	0	
OR4A15	81328	broad.mit.edu	37	11	55136066	55136066	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:55136066C>T	uc010rif.1	+	1	707	c.707C>T	c.(706-708)GCT>GTT	p.A236V		NM_001005275	NP_001005275	Q8NGL6	O4A15_HUMAN	olfactory receptor, family 4, subfamily A,	236	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GCGATTTGTGCTGTCACCTTC	0.428													7	87					0	0	0.003080	0	0	
OR4C16	219428	broad.mit.edu	37	11	55339888	55339888	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:55339888C>T	uc010rih.1	+	1	285	c.285C>T	c.(283-285)TGC>TGT	p.C95C		NM_001004701	NP_001004701	Q8NGL9	OR4CG_HUMAN	olfactory receptor, family 4, subfamily C,	95	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		all_epithelial(135;0.0748)				TCAGCGAGTGCATGATCCAAG	0.468													42	158					0	0	0.002522	0	0	
OR10AG1	282770	broad.mit.edu	37	11	55735774	55735774	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:55735774T>G	uc010rit.1	-	1	166	c.166A>C	c.(166-168)AAT>CAT	p.N56H		NM_001005491	NP_001005491	Q8NH19	O10AG_HUMAN	olfactory receptor, family 10, subfamily AG,	56	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.0137)					AGGGAAAAATTGCTAAGAAAA	0.343													6	79					0	0	0.001168	0	0	
OR10AG1	282770	broad.mit.edu	37	11	55735781	55735781	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:55735781A>G	uc010rit.1	-	1	159	c.159T>C	c.(157-159)TTT>TTC	p.F53F		NM_001005491	NP_001005491	Q8NH19	O10AG_HUMAN	olfactory receptor, family 10, subfamily AG,	53	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.0137)					AATTGCTAAGAAAAAAATACA	0.328													6	76					0	0	0.001168	0	0	
OR5F1	338674	broad.mit.edu	37	11	55761731	55761731	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:55761731G>A	uc010riv.1	-	1	371	c.371C>T	c.(370-372)GCG>GTG	p.A124V		NM_003697	NP_003688	O95221	OR5F1_HUMAN	olfactory receptor, family 5, subfamily F,	124	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)					ACATATGGCCGCATACCTGTC	0.507													17	51					0	0	0.008871	0	0	
OR8H2	390151	broad.mit.edu	37	11	55872941	55872941	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:55872941C>T	uc010riy.1	+	1	423	c.423C>T	c.(421-423)TGC>TGT	p.C141C		NM_001005200	NP_001005200	Q8N162	OR8H2_HUMAN	olfactory receptor, family 8, subfamily H,	141	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	Esophageal squamous(21;0.00693)					AAAGGCTCTGCCTCGCTCTCA	0.458										HNSCC(53;0.14)			47	136					0	0	0.003610	0	0	
OR8H3	390152	broad.mit.edu	37	11	55889929	55889929	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:55889929T>C	uc001nii.1	+	1	81	c.81T>C	c.(79-81)GCT>GCC	p.A27A		NM_001005201	NP_001005201	Q8N146	OR8H3_HUMAN	olfactory receptor, family 8, subfamily H,	27	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00693)					TCCAGATGGCTCTGTTTATGC	0.468													35	138					0	0	0.004289	0	0	
OR8K1	390157	broad.mit.edu	37	11	56114241	56114241	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:56114241G>A	uc010rjg.1	+	1	727	c.727G>A	c.(727-729)GCC>ACC	p.A243T		NM_001002907	NP_001002907	Q8NGG5	OR8K1_HUMAN	olfactory receptor, family 8, subfamily K,	243	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)					GAGGTACAAAGCCTTCTCCAC	0.413										HNSCC(65;0.19)			10	39					0	0	0.006214	0	0	
OR5M8	219484	broad.mit.edu	37	11	56258342	56258342	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:56258342C>T	uc001nix.1	-	1	505	c.505G>A	c.(505-507)GGC>AGC	p.G169S		NM_001005282	NP_001005282	Q8NGP6	OR5M8_HUMAN	olfactory receptor, family 5, subfamily M,	169	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	Esophageal squamous(21;0.00352)					TCATTGGGGCCACAGAAGGCT	0.498													27	64					0	0	0.004656	0	0	
TNKS1BP1	85456	broad.mit.edu	37	11	57076125	57076125	+	Nonsense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:57076125C>A	uc001njr.2	-	5	4372	c.4060G>T	c.(4060-4062)GAG>TAG	p.E1354*	TNKS1BP1_uc001njs.2_Nonsense_Mutation_p.E1354*|TNKS1BP1_uc009ymd.1_Nonsense_Mutation_p.E805*	NM_033396	NP_203754	Q9C0C2	TB182_HUMAN	tankyrase 1-binding protein 1	1354	Acidic.				nuclear-transcribed mRNA poly(A) tail shortening|telomere maintenance via telomerase	cytoskeleton|cytosol|nuclear telomeric heterochromatin	ankyrin binding|enzyme binding			skin(1)	1		all_epithelial(135;0.21)				CCAAAGAGCTCCACATTCTGG	0.647													30	73					9.65021e-13	1.04617e-12	0.002096	1	0	
CLP1	10978	broad.mit.edu	37	11	57428850	57428850	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:57428850G>A	uc001nkw.2	+	3	1359	c.1220G>A	c.(1219-1221)CGC>CAC	p.R407H	CLP1_uc010rjw.1_Missense_Mutation_p.R343H|CLP1_uc009yml.2_Missense_Mutation_p.R407H	NM_006831	NP_006822	Q92989	CLP1_HUMAN	ATP/GTP-binding protein isoform 1	407					mRNA 3'-end processing|nuclear mRNA splicing, via spliceosome|siRNA loading onto RISC involved in RNA interference|targeting of mRNA for destruction involved in RNA interference|termination of RNA polymerase II transcription|tRNA splicing, via endonucleolytic cleavage and ligation	nucleoplasm|tRNA-intron endonuclease complex	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|ATP-dependent polyribonucleotide 5'-hydroxyl-kinase activity			ovary(1)	1						CCAGCCCCTCGCCCACTGCCT	0.517													6	60					0	0	0.001168	0	0	
OR10V1	390201	broad.mit.edu	37	11	59480487	59480487	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:59480487C>T	uc001nof.1	-	1	832	c.832G>A	c.(832-834)GCC>ACC	p.A278T		NM_001005324	NP_001005324	Q8NGI7	O10V1_HUMAN	olfactory receptor, family 10, subfamily V,	278	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AATGTGTAGGCCACAGATACC	0.458													26	65					0	0	0.006320	0	0	
GIF	2694	broad.mit.edu	37	11	59611434	59611434	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:59611434C>T	uc001noi.2	-	2	222	c.174G>A	c.(172-174)CTG>CTA	p.L58L	GIF_uc010rkz.1_Silent_p.L58L	NM_005142	NP_005133	P27352	IF_HUMAN	gastric intrinsic factor (vitamin B synthesis)	58					cobalamin metabolic process|cobalamin transport|cobalt ion transport	apical plasma membrane|endosome|extracellular space|microvillus	cobalamin binding			ovary(1)|liver(1)	2						TCATGGCAATCAGGATGCTGG	0.542													8	44					0	0	0.003080	0	0	
Unknown	0	broad.mit.edu	37	11	59992560	59992560	+	RNA	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:59992560G>A	uc001nov.2	-	3		c.201C>T			uc001now.2_RNA|uc001nox.2_Intron|uc001noy.2_Missense_Mutation_p.R51W|uc009ymw.2_Intron					Homo sapiens mRNA for hypothetical protein, partial cds, clone:Hsa11-digit17-05-01-R.																		ATCAGAATCCGCACAACCTAG	0.373													3	16					0	0	0.004672	0	0	
MS4A4A	51338	broad.mit.edu	37	11	60070111	60070111	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:60070111C>T	uc001noz.2	+	5	477	c.467C>T	c.(466-468)GCG>GTG	p.A156V	MS4A4A_uc001npa.2_Missense_Mutation_p.A137V|MS4A4A_uc001npb.2_Missense_Mutation_p.A137V|MS4A4A_uc001npc.2_Intron	NM_148975	NP_683876	Q96JQ5	M4A4A_HUMAN	membrane-spanning 4-domains, subfamily A, member	156	Helical; (Potential).					integral to membrane	receptor activity				0						TTTAGCTTGGCGTTTTATTCA	0.403													15	49					0	0	0.004007	0	0	
MS4A8B	83661	broad.mit.edu	37	11	60470903	60470903	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:60470903C>T	uc001npv.2	+	3	475	c.272C>T	c.(271-273)GCG>GTG	p.A91V	MS4A8B_uc009yne.1_Missense_Mutation_p.A91V	NM_031457	NP_113645	Q9BY19	M4A8B_HUMAN	membrane-spanning 4-domains, subfamily A, member	91	Helical; (Potential).					integral to membrane	receptor activity				0						TCCATCATGGCGACGGTTCTC	0.552													17	43					0	0	0.004990	0	0	
PRPF19	27339	broad.mit.edu	37	11	60666093	60666093	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:60666093T>C	uc001nqf.2	-	13	1267	c.1060A>G	c.(1060-1062)ACC>GCC	p.T354A		NM_014502	NP_055317	Q9UMS4	PRP19_HUMAN	PRP19/PSO4 pre-mRNA processing factor 19	354	WD 4.				DNA repair|protein polyubiquitination|spliceosome assembly	catalytic step 2 spliceosome|nuclear speck|spindle|ubiquitin ligase complex	DNA binding|identical protein binding|ubiquitin-ubiquitin ligase activity			ovary(1)	1						TGTGCACAGGTGAGAGCTGTG	0.488													12	42					0	0	0.002450	0	0	
PRPF19	27339	broad.mit.edu	37	11	60670217	60670217	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:60670217C>T	uc001nqf.2	-	4	590	c.383G>A	c.(382-384)CGA>CAA	p.R128Q		NM_014502	NP_055317	Q9UMS4	PRP19_HUMAN	PRP19/PSO4 pre-mRNA processing factor 19	128					DNA repair|protein polyubiquitination|spliceosome assembly	catalytic step 2 spliceosome|nuclear speck|spindle|ubiquitin ligase complex	DNA binding|identical protein binding|ubiquitin-ubiquitin ligase activity			ovary(1)	1						TGCACCTTCTCGGGCAGCAGT	0.582													5	8					0	0	0.001984	0	0	
CD6	923	broad.mit.edu	37	11	60785861	60785861	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:60785861T>C	uc001nqq.2	+	12	2161	c.1938T>C	c.(1936-1938)TGT>TGC	p.C646C	CD6_uc001nqr.2_Intron|CD6_uc001nqs.2_Intron|CD6_uc001nqt.2_Intron	NM_006725	NP_006716	P30203	CD6_HUMAN	CD6 molecule precursor	646	Cytoplasmic (Potential).				cell adhesion	cell surface|integral to plasma membrane	scavenger receptor activity			pancreas(1)	1						AGTTTGGCTGTCCAGGTGCCA	0.602													3	6					0	0	0.009096	0	0	
CD5	921	broad.mit.edu	37	11	60889151	60889151	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:60889151C>T	uc009ynk.2	+	6	977	c.874C>T	c.(874-876)CGC>TGC	p.R292C		NM_014207	NP_055022	P06127	CD5_HUMAN	CD5 molecule precursor	292	Extracellular (Potential).|SRCR 3.				cell proliferation|cell recognition	integral to plasma membrane	scavenger receptor activity			ovary(1)	1		all_lung(304;5.94e-05)|Lung NSC(402;7.26e-05)		BRCA - Breast invasive adenocarcinoma(625;0.000946)|Lung(977;0.0086)|LUSC - Lung squamous cell carcinoma(625;0.0528)		CGTGGAGGTGCGCCAGGGGGC	0.657													4	10					0	0	0.000602	0	0	
TMEM216	51259	broad.mit.edu	37	11	61165323	61165323	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:61165323G>A	uc010rlj.1	+	4	579	c.286G>A	c.(286-288)GCC>ACC	p.A96T	TMEM216_uc001nrn.1_Missense_Mutation_p.A42T	NM_016499	NP_057583	Q9P0N5	TM216_HUMAN	transmembrane protein 216	96	Helical; (Potential).					integral to membrane					0						TGCCATGATGGCCTCCTATTA	0.527													8	103					0	0	0.003080	0	0	
SYT7	9066	broad.mit.edu	37	11	61290689	61290689	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:61290689G>A	uc001nrv.2	-	8	971	c.965C>T	c.(964-966)ACG>ATG	p.T322M	SYT7_uc009ynr.2_Missense_Mutation_p.T397M	NM_004200	NP_004191	O43581	SYT7_HUMAN	synaptotagmin VII	322	C2 2.|Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	transporter activity			ovary(3)|pancreas(1)	4						CATCGTCACCGTCTTCTTCTT	0.557													25	57					0	0	0.004656	0	0	
DAGLA	747	broad.mit.edu	37	11	61488161	61488161	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:61488161C>T	uc001nsa.2	+	3	217	c.106C>T	c.(106-108)CTG>TTG	p.L36L		NM_006133	NP_006124	Q9Y4D2	DGLA_HUMAN	neural stem cell-derived dendrite regulator	36	Helical; (Potential).				cell death|lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity			ovary(2)|central_nervous_system(1)	3				READ - Rectum adenocarcinoma(4;0.219)		GTTTGTGATCCTGTCCGTGGT	0.637													11	23					0	0	0.001368	0	0	
FADS1	3992	broad.mit.edu	37	11	61580742	61580742	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:61580742C>G	uc010rlm.1	-	2	587	c.459G>C	c.(457-459)GAG>GAC	p.E153D	FADS2_uc001nsj.2_5'Flank|FADS1_uc001nsh.2_Missense_Mutation_p.E12D|FADS1_uc010rln.1_Missense_Mutation_p.E12D	NM_013402	NP_037534	O60427	FADS1_HUMAN	fatty acid desaturase 1	96	Cytoplasmic (Potential).				cell-cell signaling|cellular response to starvation|electron transport chain|icosanoid biosynthetic process|phospholipid biosynthetic process|regulation of cell differentiation|regulation of transcription, DNA-dependent|transport	endoplasmic reticulum membrane|integral to membrane|microsome	C-5 sterol desaturase activity|heme binding|protein binding			central_nervous_system(1)	1					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	AGCTGGGCTGCTCTGGAGACA	0.517													6	185					0	0	0.003080	0	0	
FADS2	9415	broad.mit.edu	37	11	61615676	61615676	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:61615676G>A	uc001nsl.1	+	5	814	c.664G>A	c.(664-666)GCC>ACC	p.A222T	FADS2_uc001nsj.2_Missense_Mutation_p.A200T|FADS2_uc010rlo.1_Missense_Mutation_p.A191T|FADS2_uc001nsk.2_Missense_Mutation_p.A222T	NM_004265	NP_004256	O95864	FADS2_HUMAN	fatty acid desaturase 2	222	Cytoplasmic (Potential).				electron transport chain|transport|unsaturated fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to plasma membrane|membrane fraction	heme binding			ovary(1)|pancreas(1)	2					Alpha-Linolenic Acid(DB00132)	CCAGCACCACGCCAAGCCTAA	0.582													17	63					0	0	0.004990	0	0	
AHNAK	79026	broad.mit.edu	37	11	62288822	62288822	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:62288822G>A	uc001ntl.2	-	5	13367	c.13067C>T	c.(13066-13068)GCC>GTC	p.A4356V	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	4356					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				GACATCAGGGGCATCAATGTC	0.488													13	135					0	0	0.001368	0	0	
AHNAK	79026	broad.mit.edu	37	11	62293096	62293096	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:62293096G>A	uc001ntl.2	-	5	9093	c.8793C>T	c.(8791-8793)GAC>GAT	p.D2931D	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	2931					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				GGCCTTCAACGTCCACTTTGG	0.517													9	198					0	0	0.006214	0	0	
AHNAK	79026	broad.mit.edu	37	11	62294104	62294104	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:62294104G>A	uc001ntl.2	-	5	8085	c.7785C>T	c.(7783-7785)GGC>GGT	p.G2595G	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	2595					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				CATCCACATCGCCCTTCACCT	0.502													9	220					0	0	0.008291	0	0	
AHNAK	79026	broad.mit.edu	37	11	62298466	62298466	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:62298466G>A	uc001ntl.2	-	5	3723	c.3423C>T	c.(3421-3423)GGC>GGT	p.G1141G	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	1141					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				CTGGGCCCTCGCCTTTGAGGC	0.532													32	95					0	0	0.003755	0	0	
EEF1G	1937	broad.mit.edu	37	11	62338497	62338497	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:62338497G>A	uc001ntm.1	-	5	608	c.462C>T	c.(460-462)GGC>GGT	p.G154G	EEF1G_uc010rlw.1_Silent_p.G204G|EEF1G_uc001ntn.1_Silent_p.G34G	NM_001404	NP_001395	P26641	EF1G_HUMAN	eukaryotic translation elongation factor 1	154	GST C-terminal.				response to virus	cytosol|eukaryotic translation elongation factor 1 complex	protein binding|translation elongation factor activity				0						TCACTCGTTCGCCCACCAGAA	0.488													25	63					0	0	0.004878	0	0	
GANAB	23193	broad.mit.edu	37	11	62400959	62400959	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:62400959G>A	uc001nub.2	-	6	621	c.588C>T	c.(586-588)GGC>GGT	p.G196G	GANAB_uc001nua.2_Silent_p.G218G|GANAB_uc001nuc.2_Silent_p.G99G|GANAB_uc010rma.1_Silent_p.G104G|GANAB_uc010rmb.1_Silent_p.G82G	NM_198334	NP_938148	Q14697	GANAB_HUMAN	neutral alpha-glucosidase AB isoform 2	196					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|Golgi apparatus|melanosome	carbohydrate binding|glucan 1,3-alpha-glucosidase activity|protein binding			ovary(3)|central_nervous_system(1)|skin(1)	5						GGGCCCCATCGCCCTCAGCTG	0.637													10	33					0	0	0.003163	0	0	
HNRNPUL2	221092	broad.mit.edu	37	11	62483025	62483025	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:62483025G>A	uc001nuw.2	-	13	2303	c.2110C>T	c.(2110-2112)CGA>TGA	p.R704*	HNRNPUL2_uc001nuu.1_RNA	NM_001079559	NP_001073027	Q1KMD3	HNRL2_HUMAN	heterogeneous nuclear ribonucleoprotein U-like	704	Tyr-rich.				cell killing	nucleus	ATP binding|nucleic acid binding				0						TCATAATCTCGCCCGTAAAAT	0.433													5	89					0	0	0.001984	0	0	
WDR74	54663	broad.mit.edu	37	11	62601368	62601368	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:62601368G>A	uc001nvm.1	-	10	985	c.817C>T	c.(817-819)CGT>TGT	p.R273C	STX5_uc001nvh.2_5'Flank|STX5_uc010rmi.1_5'Flank|STX5_uc009yoh.2_5'Flank|STX5_uc001nvi.2_5'Flank|STX5_uc010rmj.1_5'Flank|STX5_uc001nvj.2_5'Flank|WDR74_uc001nvk.1_Missense_Mutation_p.R216C|WDR74_uc001nvl.1_Missense_Mutation_p.R273C|WDR74_uc001nvn.1_Missense_Mutation_p.R325C|WDR74_uc009yoi.1_Missense_Mutation_p.R273C	NM_018093	NP_060563	Q6RFH5	WDR74_HUMAN	WD repeat domain 74	273	WD 6.					nucleolus				ovary(1)	1						TGCAACCCACGCACACTGCCT	0.562													15	36					0	0	0.004007	0	0	
SLC22A8	9376	broad.mit.edu	37	11	62766535	62766535	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:62766535G>A	uc001nwo.2	-	5	755	c.619C>T	c.(619-621)CGG>TGG	p.R207W	SLC22A8_uc001nwn.1_5'UTR|SLC22A8_uc001nwp.2_Missense_Mutation_p.R207W|SLC22A8_uc009yom.2_Missense_Mutation_p.R84W|SLC22A8_uc010rmm.1_Missense_Mutation_p.R116W|SLC22A8_uc009yon.2_Missense_Mutation_p.R207W	NM_004254	NP_004245	Q8TCC7	S22A8_HUMAN	solute carrier family 22 member 8	207	Cytoplasmic (Potential).				response to toxin	basolateral plasma membrane|integral to plasma membrane|membrane fraction	inorganic anion exchanger activity|organic anion transmembrane transporter activity			skin(2)|ovary(1)	3						ATGATGGCCCGCATCCGGGTA	0.612													4	39					0	0	0.000602	0	0	
SLC22A10	387775	broad.mit.edu	37	11	63057764	63057764	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:63057764G>T	uc009yor.2	+	1	335	c.127G>T	c.(127-129)GCC>TCC	p.A43S	SLC22A10_uc010rmo.1_Intron|SLC22A10_uc001nwu.3_RNA|SLC22A10_uc010rmp.1_5'UTR	NM_001039752	NP_001034841	Q63ZE4	S22AA_HUMAN	solute carrier family 22, member 10	43	Extracellular (Potential).					integral to membrane	transmembrane transporter activity			ovary(2)	2						CTTTGCTGCAGCCATTCCTGG	0.443													15	49					3.45872e-05	3.64439e-05	0.004007	1	0	
RCOR2	283248	broad.mit.edu	37	11	63682282	63682282	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:63682282C>T	uc001nyc.2	-	5	713	c.325G>A	c.(325-327)GGC>AGC	p.G109S		NM_173587	NP_775858	Q8IZ40	RCOR2_HUMAN	REST corepressor 2	109	ELM2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)|skin(1)	2						AGAAGCATGCCCAGCGCCTGG	0.637													29	72					0	0	0.003214	0	0	
PLCB3	5331	broad.mit.edu	37	11	64023268	64023268	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:64023268G>A	uc001nzb.2	+	8	673	c.673G>A	c.(673-675)GAC>AAC	p.D225N	PLCB3_uc009ypg.1_Missense_Mutation_p.D225N|PLCB3_uc009yph.1_Missense_Mutation_p.D158N|PLCB3_uc009ypi.2_Missense_Mutation_p.D225N	NM_000932	NP_000923	Q01970	PLCB3_HUMAN	phospholipase C beta 3	225					intracellular signal transduction|lipid catabolic process|synaptic transmission	cytosol	calcium ion binding|calmodulin binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|pancreas(1)	2						TCTGCGGCCGGACATTGACAA	0.557													17	60					0	0	0.002299	0	0	
NRXN2	9379	broad.mit.edu	37	11	64434955	64434955	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:64434955C>T	uc001oar.2	-	10	2004	c.1565G>A	c.(1564-1566)CGC>CAC	p.R522H	NRXN2_uc001oas.2_Missense_Mutation_p.R491H|NRXN2_uc001oaq.2_Missense_Mutation_p.R189H	NM_015080	NP_055895	P58401	NRX2B_HUMAN	neurexin 2 isoform alpha-1 precursor	Error:Variant_position_missing_in_P58401_after_alignment					cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						CTCGGTGGTGCGGAAGTCTAG	0.677													7	21					0	0	0.004482	0	0	
PYGM	5837	broad.mit.edu	37	11	64522963	64522963	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:64522963C>T	uc001oax.3	-	6	1545	c.728G>A	c.(727-729)CGC>CAC	p.R243H	PYGM_uc001oay.3_Missense_Mutation_p.R155H	NM_005609	NP_005600	P11217	PYGM_HUMAN	muscle glycogen phosphorylase isoform 1	243					glucose metabolic process|glycogen catabolic process	cytosol	glycogen phosphorylase activity|protein binding			ovary(2)	2					Pyridoxal Phosphate(DB00114)	AGACCAGAGGCGCATGGTGTT	0.617													12	46					0	0	0.001368	0	0	
SNX15	29907	broad.mit.edu	37	11	64802341	64802341	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:64802341C>T	uc001oci.3	+	7	932	c.279C>T	c.(277-279)ATC>ATT	p.I93I	SNX15_uc009ypy.2_Silent_p.I93I|SNX15_uc001ocj.2_Silent_p.I93I|SNX15_uc001ock.2_Silent_p.I93I	NM_013306	NP_037438	Q9NRS6	SNX15_HUMAN	sorting nexin 15 isoform A	93	PX.				cell communication|intracellular protein transport	cytoplasmic vesicle membrane|cytosol	phosphatidylinositol binding|protein transporter activity			ovary(1)	1						CCTCAGTGATCGAGGAGCGGC	0.617													8	35					0	0	0.000978	0	0	
C11orf2	738	broad.mit.edu	37	11	64876893	64876893	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:64876893C>T	uc001ocr.1	+	6	1625	c.1585C>T	c.(1585-1587)CGC>TGC	p.R529C	TM7SF2_uc001oct.2_5'Flank|TM7SF2_uc010rny.1_5'Flank|TM7SF2_uc001ocu.2_5'Flank|TM7SF2_uc001ocv.2_5'Flank|C11orf2_uc001ocs.1_Missense_Mutation_p.R405C	NM_013265	NP_037397	Q9UID3	FFR_HUMAN	chromosome 11 open reading frame 2	529					lipid transport|protein transport	Golgi apparatus|integral to membrane					0						GCTGCTCTCCCGCCTCTGCCT	0.617													15	18					0	0	0.010504	0	0	
MALAT1	378938	broad.mit.edu	37	11	65273657	65273657	+	RNA	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:65273657A>G	uc010roh.1	+	1		c.8425A>G			uc001ody.2_5'Flank	NR_002819				Homo sapiens clone alpha1 mRNA sequence.												0						TGCTTTGACTACTAATCTGTC	0.438													16	28					0	0	0.004007	0	0	
LTBP3	4054	broad.mit.edu	37	11	65325188	65325188	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:65325188C>T	uc001oej.2	-	1	512	c.243G>A	c.(241-243)CGG>CGA	p.R81R	LTBP3_uc010roi.1_5'UTR|LTBP3_uc001oei.2_Silent_p.R81R|LTBP3_uc010roj.1_Silent_p.R67R|LTBP3_uc010rok.1_Intron	NM_001130144	NP_001123616	Q9NS15	LTBP3_HUMAN	latent transforming growth factor beta binding	81	Gly-rich.					extracellular region	calcium ion binding|growth factor binding			central_nervous_system(2)|lung(1)	3						GACAACTGTCCCGACACTGGC	0.582													5	18					0	0	0.001168	0	0	
KAT5	10524	broad.mit.edu	37	11	65486194	65486194	+	Silent	SNP	C	T	T	rs114460328	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:65486194C>T	uc001ofi.2	+	12	1549	c.1299C>T	c.(1297-1299)AGC>AGT	p.S433S	KAT5_uc001ofj.2_Silent_p.S381S|KAT5_uc001ofk.2_Silent_p.S466S|KAT5_uc010roo.1_Silent_p.S414S|KAT5_uc001ofl.2_Silent_p.S222S|RNASEH2C_uc001ofm.2_RNA|RNASEH2C_uc001ofn.2_3'UTR	NM_006388	NP_006379	Q92993	KAT5_HUMAN	K(lysine) acetyltransferase 5 isoform 2	433					androgen receptor signaling pathway|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|double-strand break repair|interspecies interaction between organisms|negative regulation of interleukin-2 production|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|regulation of growth|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nucleolus|perinuclear region of cytoplasm|Piccolo NuA4 histone acetyltransferase complex	androgen receptor binding|histone acetyltransferase activity|metal ion binding|repressing transcription factor binding|transcription coactivator activity				0						AGTCGGAGAGCGGGGAGAGGC	0.597													7	72					0	0	0.003080	0	0	
MUS81	80198	broad.mit.edu	37	11	65633355	65633355	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:65633355C>T	uc001ofv.3	+	15	1932	c.1579C>T	c.(1579-1581)CGT>TGT	p.R527C	MUS81_uc001ofw.3_RNA|MUS81_uc001ofx.3_Missense_Mutation_p.R84C	NM_025128	NP_079404	Q96NY9	MUS81_HUMAN	MUS81 endonuclease homolog	527					DNA recombination|DNA repair	nucleolus	3'-flap endonuclease activity|DNA binding|metal ion binding|protein binding				0				READ - Rectum adenocarcinoma(159;0.166)		TAAGTGTGGGCGTCTACAGAG	0.627								Homologous_recombination					7	56					0	0	0.000978	0	0	
SART1	9092	broad.mit.edu	37	11	65743960	65743960	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:65743960C>T	uc001ogl.2	+	13	1759	c.1667C>T	c.(1666-1668)ACG>ATG	p.T556M		NM_005146	NP_005137	O43290	SNUT1_HUMAN	squamous cell carcinoma antigen recognized by T	556					cell cycle arrest|induction of apoptosis by intracellular signals|positive regulation of cytotoxic T cell differentiation|spliceosomal snRNP assembly	Cajal body|catalytic step 2 spliceosome|cytosol				ovary(1)	1						TTCAACGCCACGTCCGAGTTC	0.672													4	14					0	0	0.000602	0	0	
KLC2	64837	broad.mit.edu	37	11	66033585	66033585	+	Missense_Mutation	SNP	C	T	T	rs139049979	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:66033585C>T	uc010rov.1	+	14	1867	c.1624C>T	c.(1624-1626)CGC>TGC	p.R542C	KLC2_uc010row.1_Missense_Mutation_p.R542C|KLC2_uc009yra.2_Intron|KLC2_uc001ohb.2_Missense_Mutation_p.R542C|KLC2_uc010rox.1_Missense_Mutation_p.R465C|KLC2_uc001ohc.2_Missense_Mutation_p.R542C|KLC2_uc001ohd.2_Missense_Mutation_p.R465C|KLC2_uc001ohe.1_Missense_Mutation_p.R403C|RAB1B_uc001ohf.2_5'Flank	NM_001134775	NP_001128247	Q9H0B6	KLC2_HUMAN	kinesin light chain 2 isoform 1	542					blood coagulation	cytosol|kinesin complex|microtubule	microtubule motor activity|protein binding				0						CTCCTTGAGGCGCAGCGGTTC	0.682													4	14					0	0	0.009096	0	0	
TMEM151A	256472	broad.mit.edu	37	11	66061810	66061810	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:66061810G>A	uc001ohl.2	+	2	205	c.93G>A	c.(91-93)CAG>CAA	p.Q31Q		NM_153266	NP_694998	Q8N4L1	T151A_HUMAN	transmembrane protein 151A	31						integral to membrane				central_nervous_system(1)	1						CCCTGAAACAGTCCCTGGGAA	0.612													13	28					0	0	0.001855	0	0	
TMEM151A	256472	broad.mit.edu	37	11	66061905	66061905	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:66061905G>A	uc001ohl.2	+	2	300	c.188G>A	c.(187-189)CGC>CAC	p.R63H		NM_153266	NP_694998	Q8N4L1	T151A_HUMAN	transmembrane protein 151A	63	Helical; (Potential).					integral to membrane				central_nervous_system(1)	1						GCCTGGTGTCGCCTGGCCACA	0.736													4	6					0	0	0.009096	0	0	
CD248	57124	broad.mit.edu	37	11	66083274	66083274	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:66083274C>T	uc001ohm.1	-	1	1242	c.1225G>A	c.(1225-1227)GCC>ACC	p.A409T		NM_020404	NP_065137	Q9HCU0	CD248_HUMAN	tumor endothelial marker 1 precursor	409	Pro-rich.|Extracellular (Potential).					integral to membrane|proteinaceous extracellular matrix	calcium ion binding|sugar binding			large_intestine(3)	3					Cefalotin(DB00456)	GGTCTATAGGCCAGGGCAAAG	0.642													4	50					0	0	0.000602	0	0	
PELI3	246330	broad.mit.edu	37	11	66235677	66235677	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:66235677C>T	uc001oic.3	+	2	242	c.78C>T	c.(76-78)TGC>TGT	p.C26C	PELI3_uc001oib.2_Silent_p.C26C|PELI3_uc001oid.3_Silent_p.C26C|PELI3_uc001oie.3_5'UTR	NM_145065	NP_659502	Q8N2H9	PELI3_HUMAN	pellino 3 alpha isoform 1	26						cytosol	protein binding			ovary(1)	1						AGGGCTCTTGCGTTCTCTCCT	0.602													10	26					0	0	0.001368	0	0	
ACTN3	89	broad.mit.edu	37	11	66330622	66330622	+	Silent	SNP	C	T	T	rs79516407	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:66330622C>T	uc001oio.1	+	22	2682	c.2664C>T	c.(2662-2664)TAC>TAT	p.Y888Y	ACTN3_uc010rpi.1_RNA	NM_001104	NP_001095	Q08043	ACTN3_HUMAN	actinin, alpha 3	888					focal adhesion assembly|muscle filament sliding|regulation of apoptosis	actin filament|cytosol|focal adhesion|pseudopodium	actin binding|calcium ion binding|integrin binding|protein homodimerization activity|structural constituent of muscle				0						CCCTGGACTACGTGGCCTTCT	0.632													4	27					0	0	0.009096	0	0	
RBM4	5936	broad.mit.edu	37	11	66411175	66411175	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:66411175A>G	uc009yrj.2	+	3	1155	c.667A>G	c.(667-669)AAG>GAG	p.K223E	RBM4_uc009yrk.2_Missense_Mutation_p.K198E|RBM4_uc001oiw.1_Missense_Mutation_p.K223E|RBM4_uc001oix.1_Intron|RBM4_uc010rpj.1_Intron|RBM4_uc001oiy.1_Missense_Mutation_p.K223E|RBM4_uc001oiz.1_Missense_Mutation_p.K223E	NM_002896	NP_002887	Q9BWF3	RBM4_HUMAN	RNA binding motif protein 4	223	Interaction with TNPO3.				circadian regulation of gene expression|entrainment of circadian clock by photoperiod|mRNA processing|negative regulation of translation in response to stress|negative regulation of translation involved in gene silencing by miRNA|negative regulation of translational initiation|positive regulation of muscle cell differentiation|regulation of alternative nuclear mRNA splicing, via spliceosome|regulation of nucleocytoplasmic transport|RNA splicing|stress-activated MAPK cascade	nuclear speck|nucleolus|stress granule	miRNA binding|mRNA 3'-UTR binding|nucleotide binding|protein binding|zinc ion binding			ovary(1)	1				Lung(977;0.0112)|LUSC - Lung squamous cell carcinoma(976;0.0266)		TGCCTACTACAAGCGCTGCCG	0.547													7	28					0	0	0.004482	0	0	
SPTBN2	6712	broad.mit.edu	37	11	66456223	66456223	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:66456223C>T	uc001ojd.2	-	30	6204	c.6132G>A	c.(6130-6132)ACG>ACA	p.T2044T	SPTBN2_uc001ojc.1_5'Flank	NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	2044	Spectrin 17.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						CTTCGTCGACCGTGCAACCCA	0.607													6	40					0	0	0.001984	0	0	
SPTBN2	6712	broad.mit.edu	37	11	66461764	66461764	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:66461764G>A	uc001ojd.2	-	21	4421	c.4349C>T	c.(4348-4350)GCC>GTC	p.A1450V		NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	1450	Spectrin 11.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						GTCCTCCTGGGCCAGTGCTTT	0.632											OREG0021113	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	19					0	0	0.004482	0	0	
SPTBN2	6712	broad.mit.edu	37	11	66475077	66475077	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:66475077G>A	uc001ojd.2	-	12	1635	c.1563C>T	c.(1561-1563)GCC>GCT	p.A521A		NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	521	Spectrin 2.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						CCCGCCGGGCGGCCACCATCT	0.637													5	5					0	0	0.001168	0	0	
SPTBN2	6712	broad.mit.edu	37	11	66475138	66475138	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:66475138C>T	uc001ojd.2	-	12	1574	c.1502G>A	c.(1501-1503)CGC>CAC	p.R501H		NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	501	Spectrin 2.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						AGCGGCGATGCGCTTGATGTC	0.687													6	13					0	0	0.001168	0	0	
LRFN4	78999	broad.mit.edu	37	11	66626561	66626561	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:66626561A>G	uc001ojr.2	+	1	1686	c.1346A>G	c.(1345-1347)TAC>TGC	p.Y449C	PC_uc001ojo.1_Intron|PC_uc001ojp.1_Intron|PC_uc001ojn.1_Intron|LRFN4_uc001ojs.2_Intron	NM_024036	NP_076941	Q6PJG9	LRFN4_HUMAN	leucine rich repeat and fibronectin type III	449	Extracellular (Potential).|Fibronectin type-III.					integral to membrane					0						ACCCTCATCTACCGGTGAGGA	0.657													10	27					0	0	0.008291	0	0	
ADRBK1	156	broad.mit.edu	37	11	67047125	67047125	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:67047125T>C	uc009yrn.1	+	5	661	c.395T>C	c.(394-396)GTC>GCC	p.V132A	ADRBK1_uc009yrm.1_Missense_Mutation_p.V132A	NM_001619	NP_001610	P25098	ARBK1_HUMAN	beta-adrenergic receptor kinase 1	132	RGS.|N-terminal.				activation of phospholipase C activity|cardiac muscle contraction|desensitization of G-protein coupled receptor protein signaling pathway|muscarinic acetylcholine receptor signaling pathway|negative regulation of striated muscle contraction|negative regulation of the force of heart contraction by chemical signal|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|positive regulation of catecholamine secretion|tachykinin receptor signaling pathway	cytosol|soluble fraction	alpha-2A adrenergic receptor binding|ATP binding|beta-adrenergic receptor kinase activity|Edg-2 lysophosphatidic acid receptor binding|G-protein coupled receptor kinase activity|signal transducer activity			large_intestine(1)	1			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)		Adenosine triphosphate(DB00171)	ACTGAGCATGTCCAAGGCCAC	0.612													5	45					0	0	0.001168	0	0	
ADRBK1	156	broad.mit.edu	37	11	67052656	67052656	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:67052656C>T	uc009yrn.1	+	20	2168	c.1902C>T	c.(1900-1902)TGC>TGT	p.C634C	ADRBK1_uc009yrm.1_Intron	NM_001619	NP_001610	P25098	ARBK1_HUMAN	beta-adrenergic receptor kinase 1	634	PH.				activation of phospholipase C activity|cardiac muscle contraction|desensitization of G-protein coupled receptor protein signaling pathway|muscarinic acetylcholine receptor signaling pathway|negative regulation of striated muscle contraction|negative regulation of the force of heart contraction by chemical signal|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|positive regulation of catecholamine secretion|tachykinin receptor signaling pathway	cytosol|soluble fraction	alpha-2A adrenergic receptor binding|ATP binding|beta-adrenergic receptor kinase activity|Edg-2 lysophosphatidic acid receptor binding|G-protein coupled receptor kinase activity|signal transducer activity			large_intestine(1)	1			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)		Adenosine triphosphate(DB00171)	TTTTGCAGTGCGATGTGAGTG	0.632													8	90					0	0	0.008291	0	0	
SSH3	54961	broad.mit.edu	37	11	67077278	67077278	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:67077278C>T	uc001okj.2	+	12	1426	c.1248C>T	c.(1246-1248)GGC>GGT	p.G416G	SSH3_uc001okk.2_RNA|SSH3_uc001okl.2_Silent_p.G270G	NM_017857	NP_060327	Q8TE77	SSH3_HUMAN	slingshot homolog 3	416	Tyrosine-protein phosphatase.				regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton|nucleus	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)			GCAAGATGGGCGTCAGCCGCT	0.657													11	27					0	0	0.001855	0	0	
GSTP1	2950	broad.mit.edu	37	11	67352167	67352167	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:67352167G>A	uc001omf.2	+	4	405	c.156G>A	c.(154-156)CAG>CAA	p.Q52Q	GSTP1_uc001omg.1_Silent_p.Q33Q	NM_000852	NP_000843	P09211	GSTP1_HUMAN	glutathione transferase	52	GST N-terminal.|Glutathione binding.				anti-apoptosis|cellular response to lipopolysaccharide|central nervous system development|common myeloid progenitor cell proliferation|glutathione metabolic process|negative regulation of acute inflammatory response|negative regulation of ERK1 and ERK2 cascade|negative regulation of fibroblast proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interleukin-1 beta production|negative regulation of JUN kinase activity|negative regulation of leukocyte proliferation|negative regulation of monocyte chemotactic protein-1 production|negative regulation of necrotic cell death|negative regulation of nitric-oxide synthase 2 biosynthetic process|negative regulation of stress-activated MAPK cascade|negative regulation of tumor necrosis factor production|nitric oxide storage|positive regulation of superoxide anion generation|response to reactive oxygen species|xenobiotic metabolic process	cytosol|protein complex	dinitrosyl-iron complex binding|glutathione transferase activity|JUN kinase binding|kinase regulator activity|nitric oxide binding|S-nitrosoglutathione binding			ovary(1)	1					Ethacrynic acid(DB00903)|Glutathione(DB00143)	TATACGGGCAGCTCCCCAAGT	0.632													15	82					0	0	0.006122	0	0	
ALDH3B2	222	broad.mit.edu	37	11	67432886	67432886	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:67432886G>A	uc001omr.2	-	7	1015	c.576C>T	c.(574-576)GGC>GGT	p.G192G	ALDH3B2_uc001oms.2_Silent_p.G192G|ALDH3B2_uc009ysa.1_Silent_p.G192G	NM_000695	NP_000686	P48448	AL3B2_HUMAN	aldehyde dehydrogenase 3B2	192					alcohol metabolic process|cellular aldehyde metabolic process|lipid metabolic process		3-chloroallyl aldehyde dehydrogenase activity|aldehyde dehydrogenase			lung(1)|kidney(1)	2					NADH(DB00157)	GGGGGTCGTCGCCATAGAAAC	0.662													4	42					0	0	0.009096	0	0	
TCIRG1	10312	broad.mit.edu	37	11	67816417	67816417	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:67816417C>T	uc001one.2	+	14	1734	c.1626C>T	c.(1624-1626)GGC>GGT	p.G542G	TCIRG1_uc001ong.2_Silent_p.G326G|TCIRG1_uc001onh.2_Silent_p.G244G|TCIRG1_uc001oni.2_Silent_p.G46G|TCIRG1_uc009ysd.2_5'Flank	NM_006019	NP_006010	Q13488	VPP3_HUMAN	T-cell, immune regulator 1 isoform a	542	Helical; (Potential).				ATP hydrolysis coupled proton transport|cellular defense response|cellular iron ion homeostasis|insulin receptor signaling pathway|positive regulation of cell proliferation|transferrin transport	apical plasma membrane|endosome membrane|integral to plasma membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	hydrogen ion transmembrane transporter activity			ovary(1)	1						TCATCCTGGGCGTCGTGCACA	0.632													27	74					0	0	0.008361	0	0	
SUV420H1	51111	broad.mit.edu	37	11	67957392	67957392	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:67957392G>A	uc001onm.1	-	2	408	c.152C>T	c.(151-153)TCG>TTG	p.S51L	SUV420H1_uc009yse.1_5'UTR|SUV420H1_uc001onn.1_5'UTR|SUV420H1_uc009ysf.2_5'UTR|SUV420H1_uc001ono.1_Missense_Mutation_p.S51L|SUV420H1_uc001onp.2_Missense_Mutation_p.S51L|SUV420H1_uc010rqa.1_Missense_Mutation_p.S51L|SUV420H1_uc001onq.2_Missense_Mutation_p.S51L	NM_017635	NP_060105	Q4FZB7	SV421_HUMAN	suppressor of variegation 4-20 homolog 1 isoform	51					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			ovary(2)|kidney(1)	3						ACATCTGTTCGACCTCCTCTC	0.413													64	155					0	0	0.003610	0	0	
C11orf24	53838	broad.mit.edu	37	11	68029864	68029864	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:68029864G>A	uc001onr.3	-	4	1041	c.599C>T	c.(598-600)GCG>GTG	p.A200V	C11orf24_uc001ons.2_Missense_Mutation_p.A200V	NM_022338	NP_071733	Q96F05	CK024_HUMAN	hypothetical protein LOC53838 precursor	200	Extracellular (Potential).					integral to membrane					0						TCTTGGCAACGCGCTGCTCTT	0.622													8	29					0	0	0.006214	0	0	
SAPS3	55291	broad.mit.edu	37	11	68377453	68377453	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:68377453C>T	uc001onw.2	+	23	2799	c.2532C>T	c.(2530-2532)TGC>TGT	p.C844C	SAPS3_uc001onv.2_Silent_p.C850C|SAPS3_uc001ony.3_Silent_p.C815C|SAPS3_uc001onx.2_Silent_p.C838C|SAPS3_uc009ysh.2_Silent_p.C764C|SAPS3_uc001onu.2_Silent_p.C764C|SAPS3_uc010rqc.1_Silent_p.C612C|SAPS3_uc010rqd.1_Silent_p.C527C|SAPS3_uc001onz.2_Silent_p.C172C|SAPS3_uc001ooa.2_Silent_p.C300C	NM_001164161	NP_001157633	Q5H9R7	PP6R3_HUMAN	SAPS domain family, member 3 isoform 6	844					regulation of phosphoprotein phosphatase activity	cytoplasm|nucleus	protein phosphatase binding				0			LUAD - Lung adenocarcinoma(13;0.102)			AGGCGAAGTGCGCGGCGCCCA	0.607													36	20					0	0	0.003271	0	0	
PPFIA1	8500	broad.mit.edu	37	11	70118424	70118424	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:70118424G>A	uc001opo.2	+	2	344	c.146G>A	c.(145-147)CGC>CAC	p.R49H	PPFIA1_uc001opn.1_Missense_Mutation_p.R49H|PPFIA1_uc001opp.2_RNA	NM_003626	NP_003617	Q13136	LIPA1_HUMAN	PTPRF interacting protein alpha 1 isoform b	49	Potential.				cell-matrix adhesion	cytoplasm	protein binding|signal transducer activity			lung(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(2;1.04e-44)|LUSC - Lung squamous cell carcinoma(11;1.46e-14)|STAD - Stomach adenocarcinoma(18;0.0513)			GAAAGGGACCGCCTTCTTGAT	0.517													33	67					0	0	0.002445	0	0	
SHANK2	22941	broad.mit.edu	37	11	70332069	70332069	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:70332069G>A	uc001oqc.2	-	21	4407	c.4329C>T	c.(4327-4329)AGC>AGT	p.S1443S	SHANK2_uc010rqn.1_Silent_p.S855S|SHANK2_uc001opz.2_Silent_p.S848S|uc009ysn.1_Intron|SHANK2_uc001opy.2_Intron	NM_012309	NP_036441	Q9UPX8	SHAN2_HUMAN	SH3 and multiple ankyrin repeat domains 2	1064					intracellular signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	GKAP/Homer scaffold activity|ionotropic glutamate receptor binding|SH3 domain binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(11;4.72e-09)|STAD - Stomach adenocarcinoma(18;0.071)			GAGGGGTGTCGCTTTTCTTCT	0.527													18	62					0	0	0.006122	0	0	
SHANK2	22941	broad.mit.edu	37	11	70507852	70507852	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:70507852G>A	uc010rqn.1	-	1	72	c.21C>T	c.(19-21)GGC>GGT	p.G7G	SHANK2_uc001opz.2_Silent_p.G7G|SHANK2_uc001oqc.2_Intron|uc009ysn.1_Missense_Mutation_p.R97H|SHANK2_uc010rqp.1_Silent_p.G7G	NM_133266	NP_573573	Q9UPX8	SHAN2_HUMAN	SH3 and multiple ankyrin repeat domains 2	Error:Variant_position_missing_in_Q9UPX8_after_alignment					intracellular signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	GKAP/Homer scaffold activity|ionotropic glutamate receptor binding|SH3 domain binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(11;4.72e-09)|STAD - Stomach adenocarcinoma(18;0.071)			CCGCTCCTCCGCCGGGGACGT	0.577													22	38					0	0	0.008361	0	0	
DHCR7	1717	broad.mit.edu	37	11	71150017	71150017	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:71150017C>T	uc001oqk.2	-	7	989	c.739G>A	c.(739-741)GCC>ACC	p.A247T	DHCR7_uc001oql.2_Missense_Mutation_p.A247T	NM_001163817	NP_001157289	Q9UBM7	DHCR7_HUMAN	7-dehydrocholesterol reductase	247			A -> V (in SLOS).		cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane|nuclear outer membrane	7-dehydrocholesterol reductase activity|protein binding			ovary(1)|liver(1)	2					NADH(DB00157)	AGGGTCCAGGCGACGATCCCG	0.552									Smith-Lemli-Opitz_syndrome				13	33					0	0	0.003163	0	0	
NUMA1	4926	broad.mit.edu	37	11	71725378	71725378	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:71725378C>T	uc001orl.1	-	15	3343	c.3171G>A	c.(3169-3171)ACG>ACA	p.T1057T	NUMA1_uc009ysw.1_Silent_p.T620T|NUMA1_uc001ork.1_Intron|NUMA1_uc001orm.1_Silent_p.T1057T|NUMA1_uc001orn.2_Silent_p.T620T|NUMA1_uc009ysx.1_Silent_p.T1057T|NUMA1_uc001oro.1_Silent_p.T1057T	NM_006185	NP_006176	Q14980	NUMA1_HUMAN	nuclear mitotic apparatus protein 1	1057	Potential.				G2/M transition of mitotic cell cycle|mitotic anaphase|nucleus organization	chromosome|cytosol|nucleoplasm|spindle microtubule|spindle pole	protein binding|structural molecule activity			ovary(3)|lung(2)|skin(2)|central_nervous_system(1)	8						CTTCCTTTTCCGTCAGGGCAT	0.587			T	RARA	APL								19	45					0	0	0.003954	0	0	
NUMA1	4926	broad.mit.edu	37	11	71725779	71725779	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:71725779G>A	uc001orl.1	-	15	2942	c.2770C>T	c.(2770-2772)CGC>TGC	p.R924C	NUMA1_uc009ysw.1_Missense_Mutation_p.R487C|NUMA1_uc001ork.1_Intron|NUMA1_uc001orm.1_Missense_Mutation_p.R924C|NUMA1_uc001orn.2_Missense_Mutation_p.R487C|NUMA1_uc009ysx.1_Missense_Mutation_p.R924C|NUMA1_uc001oro.1_Missense_Mutation_p.R924C	NM_006185	NP_006176	Q14980	NUMA1_HUMAN	nuclear mitotic apparatus protein 1	924	Potential.				G2/M transition of mitotic cell cycle|mitotic anaphase|nucleus organization	chromosome|cytosol|nucleoplasm|spindle microtubule|spindle pole	protein binding|structural molecule activity			ovary(3)|lung(2)|skin(2)|central_nervous_system(1)	8						CCTGCCTTGCGCACCAAGGTC	0.607			T	RARA	APL								10	35					0	0	0.001855	0	0	
FOLR3	2352	broad.mit.edu	37	11	71850830	71850830	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:71850830G>A	uc001ory.1	+	5	869	c.819G>A	c.(817-819)GCG>GCA	p.A273A	FOLR3_uc001orx.1_Silent_p.A231A			P41439	FOLR3_HUMAN	SubName: Full=FOLR3 protein; Flags: Fragment;	229					folic acid transport	extracellular region|extrinsic to membrane|membrane fraction	folic acid binding|receptor activity				0					Folic Acid(DB00158)	TCTATGCTGCGGCCATGAATG	0.537													7	24					0	0	0.006214	0	0	
INPPL1	3636	broad.mit.edu	37	11	71939260	71939260	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:71939260G>A	uc001osf.2	+	2	356	c.209G>A	c.(208-210)CGC>CAC	p.R70H	INPPL1_uc001osg.2_5'UTR	NM_001567	NP_001558	O15357	SHIP2_HUMAN	inositol polyphosphate phosphatase-like 1	70	SH2.				actin filament organization|cell adhesion|endocytosis	actin cortical patch|cytosol	actin binding|SH2 domain binding|SH3 domain binding			skin(2)|ovary(1)|breast(1)	4						CACACGTATCGCATTCTGCCT	0.587													23	35					0	0	0.004656	0	0	
PDE2A	5138	broad.mit.edu	37	11	72295250	72295250	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:72295250C>T	uc010rrc.1	-	19	1888	c.1645G>A	c.(1645-1647)GCC>ACC	p.A549T	PDE2A_uc001oso.2_Missense_Mutation_p.A528T|PDE2A_uc010rra.1_Missense_Mutation_p.A542T|PDE2A_uc001osn.2_Missense_Mutation_p.A293T|PDE2A_uc010rrb.1_Missense_Mutation_p.A540T|PDE2A_uc010rrd.1_Missense_Mutation_p.A434T	NM_002599	NP_002590	O00408	PDE2A_HUMAN	phosphodiesterase 2A isoform 1	549					platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|cGMP-stimulated cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(2)|breast(1)|skin(1)	4			BRCA - Breast invasive adenocarcinoma(5;3.55e-05)		Sildenafil(DB00203)|Sulindac(DB00605)	CTCACATGGGCGATGCTGATG	0.632													4	14					0	0	0.000602	0	0	
ARAP1	116985	broad.mit.edu	37	11	72420943	72420943	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:72420943C>T	uc001osu.2	-	11	1684	c.1495G>A	c.(1495-1497)GAC>AAC	p.D499N	ARAP1_uc001osv.2_Missense_Mutation_p.D499N|ARAP1_uc001osr.2_Missense_Mutation_p.D259N|ARAP1_uc001oss.2_Missense_Mutation_p.D254N|ARAP1_uc009yth.2_Missense_Mutation_p.D254N|ARAP1_uc010rre.1_Missense_Mutation_p.D254N	NM_001040118	NP_001035207	Q96P48	ARAP1_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	499	PH 2.				actin filament reorganization involved in cell cycle|negative regulation of stress fiber assembly|positive regulation of Cdc42 GTPase activity|positive regulation of filopodium assembly|regulation of ARF GTPase activity|regulation of cell shape|regulation of cellular component movement|small GTPase mediated signal transduction	cytosol|Golgi cisterna membrane|plasma membrane	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|protein binding|Rho GTPase activator activity|zinc ion binding			skin(1)	1						GTGGTGAGGTCGAAGCTGCGC	0.587													15	40					0	0	0.006122	0	0	
P2RY2	5029	broad.mit.edu	37	11	72945327	72945327	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:72945327C>T	uc001otj.2	+	3	456	c.123C>T	c.(121-123)GGC>GGT	p.G41G	P2RY2_uc001otk.2_Silent_p.G41G|P2RY2_uc001otl.2_Silent_p.G41G	NM_002564	NP_002555	P41231	P2RY2_HUMAN	purinergic receptor P2Y2	41	Helical; Name=1; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(2)|lung(1)|skin(1)	4					Suramin(DB04786)	TGTCCTACGGCGTGGTGTGCG	0.582													19	45					0	0	0.002299	0	0	
ARHGEF17	9828	broad.mit.edu	37	11	73070963	73070963	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:73070963G>A	uc001otu.2	+	10	4193	c.4172G>A	c.(4171-4173)AGC>AAC	p.S1391N		NM_014786	NP_055601	Q96PE2	ARHGH_HUMAN	Rho guanine nucleotide exchange factor (GEF) 17	1391					actin cytoskeleton organization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity				0						GGCCAAATGAGCAAGCTCTCT	0.602													13	41					0	0	0.004007	0	0	
RAB6A	5870	broad.mit.edu	37	11	73429910	73429910	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:73429910G>A	uc001oue.2	-	4	730	c.209C>T	c.(208-210)GCG>GTG	p.A70V	RAB6A_uc001ouf.2_Intron|RAB6A_uc009yts.2_Intron	NM_002869	NP_002860	P20340	RAB6A_HUMAN	RAB6A, member RAS oncogene family isoform a	70	GTP.				minus-end-directed organelle transport along microtubule|peptidyl-cysteine methylation|protein targeting to Golgi|retrograde vesicle-mediated transport, Golgi to ER|small GTPase mediated signal transduction	cytoplasmic vesicle|cytosol|Golgi membrane|trans-Golgi network	GTP binding|GTPase activity|protein domain specific binding				0						TTCCTGACCCGCAGTATCCCA	0.343													33	86					0	0	0.004878	0	0	
XRRA1	143570	broad.mit.edu	37	11	74563096	74563096	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:74563096G>A	uc009yub.2	-	13	1510	c.1178C>T	c.(1177-1179)GCT>GTT	p.A393V	XRRA1_uc001ovm.2_RNA|XRRA1_uc001ovn.2_Missense_Mutation_p.A16V|XRRA1_uc001ovo.2_Missense_Mutation_p.A16V|XRRA1_uc001ovq.3_Intron|XRRA1_uc001ovp.3_Missense_Mutation_p.A118V|XRRA1_uc001ovr.2_Missense_Mutation_p.A16V|XRRA1_uc001ovs.1_Intron	NM_182969	NP_892014	Q6P2D8	XRRA1_HUMAN	X-ray radiation resistance associated 1	393					response to X-ray	cytoplasm|nucleus				central_nervous_system(1)	1						TGGGAAGAGAGCTACTGGTAG	0.537													32	68					0	0	0.004289	0	0	
UVRAG	7405	broad.mit.edu	37	11	75851844	75851844	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:75851844T>A	uc001oxc.2	+	15	1728	c.1487T>A	c.(1486-1488)ATC>AAC	p.I496N	UVRAG_uc010rrw.1_Missense_Mutation_p.I395N|UVRAG_uc001oxd.2_Missense_Mutation_p.I124N|UVRAG_uc010rrx.1_Missense_Mutation_p.I124N|UVRAG_uc010rry.1_Missense_Mutation_p.I52N	NM_003369	NP_003360	Q9P2Y5	UVRAG_HUMAN	UV radiation resistance associated	496					DNA repair|positive regulation of autophagy	early endosome|late endosome|lysosome	protein binding			skin(4)|lung(2)	6						TCTGGGGGGATCCCTTCACCA	0.502													27	76					0	0	0.006320	0	0	
UVRAG	7405	broad.mit.edu	37	11	75851877	75851877	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:75851877C>T	uc001oxc.2	+	15	1761	c.1520C>T	c.(1519-1521)GCC>GTC	p.A507V	UVRAG_uc010rrw.1_Missense_Mutation_p.A406V|UVRAG_uc001oxd.2_Missense_Mutation_p.A135V|UVRAG_uc010rrx.1_Missense_Mutation_p.A135V|UVRAG_uc010rry.1_Missense_Mutation_p.A63V	NM_003369	NP_003360	Q9P2Y5	UVRAG_HUMAN	UV radiation resistance associated	507					DNA repair|positive regulation of autophagy	early endosome|late endosome|lysosome	protein binding			skin(4)|lung(2)	6						CGAAAACGGGCCAGCTCTGAG	0.537													28	78					0	0	0.008361	0	0	
TSKU	25987	broad.mit.edu	37	11	76507476	76507476	+	Silent	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:76507476T>G	uc001oxt.2	+	2	988	c.816T>G	c.(814-816)GCT>GCG	p.A272A		NM_015516	NP_056331	Q8WUA8	TSK_HUMAN	tsukushin precursor	272	LRR 9.					extracellular region					0	Ovarian(111;0.112)					GGGCAGGAGCTGAGGTGTTTT	0.667													3	23					0	0	0.004672	0	0	
NDUFC2	4718	broad.mit.edu	37	11	77784094	77784094	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:77784094C>T	uc009yuw.2	-	2	735	c.260G>A	c.(259-261)CGT>CAT	p.R87H		NM_004549	NP_004540	O95298	NDUC2_HUMAN	NADH dehydrogenase (ubiquinone) 1, subcomplex	87					mitochondrial electron transport, NADH to ubiquinone|transport	integral to membrane|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity				0	all_cancers(14;2.23e-19)|all_epithelial(13;7.49e-22)|Breast(9;6.38e-17)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;2.15e-25)		Carvedilol(DB01136)|NADH(DB00157)	AAACATTTCACGGTCCCTCAC	0.328													11	105					0	0	0.001855	0	0	
PCF11	51585	broad.mit.edu	37	11	82868586	82868586	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:82868586G>A	uc001ozx.3	+	1	450	c.105G>A	c.(103-105)CCG>CCA	p.P35P	PCF11_uc010rsu.1_Silent_p.P35P|PCF11_uc001ozy.2_Silent_p.P35P	NM_015885	NP_056969	O94913	PCF11_HUMAN	pre-mRNA cleavage complex II protein Pcf11	35	CID.				mRNA 3'-end processing|mRNA cleavage|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage factor complex				ovary(1)	1						ATAGCAAGCCGCACATCAATA	0.592													9	82					0	0	0.006214	0	0	
C11orf73	51501	broad.mit.edu	37	11	86048431	86048431	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:86048431C>T	uc001pbu.2	+	3	517	c.279C>T	c.(277-279)AGC>AGT	p.S93S	C11orf73_uc001pbt.2_Silent_p.S93S|C11orf73_uc010rto.1_RNA|C11orf73_uc010rtp.1_5'UTR|C11orf73_uc001pbv.2_RNA	NM_016401	NP_057485	Q53FT3	CK073_HUMAN	lethal, Chr 7, Rinchik 6	93						cytoplasm					0		Acute lymphoblastic leukemia(157;1.17e-07)|all_hematologic(158;0.000556)				GAGAAGGAAGCCAACATCCTT	0.358													14	101					0	0	0.003163	0	0	
ME3	10873	broad.mit.edu	37	11	86267716	86267716	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:86267716G>A	uc001pbz.2	-	3	600	c.346C>T	c.(346-348)CGG>TGG	p.R116W	ME3_uc001pca.2_Missense_Mutation_p.R116W|ME3_uc009yvk.2_Missense_Mutation_p.R116W|ME3_uc010rtr.1_RNA	NM_001014811	NP_001014811	Q16798	MAON_HUMAN	mitochondrial malic enzyme 3 precursor	116					aerobic respiration|malate metabolic process|oxygen metabolic process|pyruvate metabolic process	mitochondrial matrix	malate dehydrogenase (oxaloacetate-decarboxylating) (NADP+) activity|metal ion binding|NAD binding			ovary(1)	1		Acute lymphoblastic leukemia(157;4.34e-06)|all_hematologic(158;0.00252)			NADH(DB00157)	TTCTCGTTCCGGTCTTGGAGT	0.532													18	40					0	0	0.006122	0	0	
GRM5	2915	broad.mit.edu	37	11	88300351	88300351	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:88300351G>A	uc001pcq.2	-	7	2700	c.2500C>T	c.(2500-2502)CGC>TGC	p.R834C	GRM5_uc009yvm.2_Missense_Mutation_p.R834C	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	834	Cytoplasmic (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	AAGGCGCTGCGCACGTTTCTC	0.572													9	36					0	0	0.004482	0	0	
CHORDC1	26973	broad.mit.edu	37	11	89938663	89938663	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:89938663T>C	uc001pdg.2	-	8	1044	c.634A>G	c.(634-636)ACA>GCA	p.T212A	CHORDC1_uc009yvz.2_Missense_Mutation_p.T193A	NM_012124	NP_036256	Q9UHD1	CHRD1_HUMAN	cysteine and histidine-rich domain-containing	212	Interaction with HSP90AA1 and HSP90AB1 (By similarity).|CHORD 2.				chaperone-mediated protein folding|regulation of response to stress|response to stress		Hsp90 protein binding|identical protein binding				0		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.00915)				TTCCCTTTTGTACAGCCCTCT	0.323													16	61					0	0	0.010504	0	0	
FAT3	120114	broad.mit.edu	37	11	92507336	92507336	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:92507336C>T	uc001pdj.3	+	6	4342	c.4325C>T	c.(4324-4326)GCT>GTT	p.A1442V		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	1442	Cadherin 13.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				ACAAATGTTGCTGTTACTCAG	0.423										TCGA Ovarian(4;0.039)			4	37					0	0	0.009096	0	0	
MTNR1B	4544	broad.mit.edu	37	11	92715429	92715429	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:92715429G>A	uc001pdk.1	+	2	1143	c.1040G>A	c.(1039-1041)AGC>AAC	p.S347N		NM_005959	NP_005950	P49286	MTR1B_HUMAN	melatonin receptor 1B	347	Cytoplasmic (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|glucose homeostasis|regulation of insulin secretion|synaptic transmission	integral to plasma membrane	melatonin receptor activity			ovary(1)|central_nervous_system(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)			Ramelteon(DB00980)	GGGCTGCAGAGCCCAGCTCCA	0.572													14	36					0	0	0.006122	0	0	
C11orf90	387804	broad.mit.edu	37	11	93554356	93554356	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:93554356C>T	uc010ruc.1	-	2	225	c.225G>A	c.(223-225)ACG>ACA	p.T75T		NM_001144871	NP_001138343	A8MXK1	VSTM5_HUMAN	hypothetical protein LOC387804 precursor	75	Ig-like C2-type.|Extracellular (Potential).					integral to membrane					0						CGATCTTCTGCGTTCCCCAAT	0.507													5	15					0	0	0.001984	0	0	
HEPHL1	341208	broad.mit.edu	37	11	93796832	93796832	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:93796832G>A	uc001pep.2	+	3	731	c.574G>A	c.(574-576)GCC>ACC	p.A192T		NM_001098672	NP_001092142	Q6MZM0	HPHL1_HUMAN	hephaestin-like 1 precursor	192	Plastocyanin-like 1.|Extracellular (Potential).				copper ion transport	integral to membrane	copper ion binding|oxidoreductase activity			ovary(3)	3		Acute lymphoblastic leukemia(157;2.34e-05)|all_hematologic(158;0.00824)				GCACATCGACGCCCCAAAGGA	0.522													6	92					0	0	0.003080	0	0	
HEPHL1	341208	broad.mit.edu	37	11	93826690	93826690	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:93826690G>A	uc001pep.2	+	13	2475	c.2318G>A	c.(2317-2319)CGC>CAC	p.R773H	uc001pen.1_Intron	NM_001098672	NP_001092142	Q6MZM0	HPHL1_HUMAN	hephaestin-like 1 precursor	773	Plastocyanin-like 5.|Extracellular (Potential).				copper ion transport	integral to membrane	copper ion binding|oxidoreductase activity			ovary(3)	3		Acute lymphoblastic leukemia(157;2.34e-05)|all_hematologic(158;0.00824)				TTTATGAACCGCACTGAAAAT	0.428													42	108					0	0	0.003610	0	0	
PIWIL4	143689	broad.mit.edu	37	11	94326774	94326774	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:94326774G>A	uc001pfa.2	+	9	1328	c.1117G>A	c.(1117-1119)GCC>ACC	p.A373T	PIWIL4_uc010rue.1_RNA|PIWIL4_uc009ywk.1_RNA	NM_152431	NP_689644	Q7Z3Z4	PIWL4_HUMAN	piwi-like 4	373	PAZ.				cell differentiation|DNA methylation involved in gamete generation|gene silencing by RNA|meiosis|multicellular organismal development|piRNA metabolic process|regulation of translation|spermatogenesis	nucleus|piP-body	piRNA binding			skin(1)	1		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				GGCTCAGCTCGCCCACCTGAT	0.458													22	74					0	0	0.001882	0	0	
AMOTL1	154810	broad.mit.edu	37	11	94599243	94599243	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:94599243G>A	uc001pfb.2	+	11	2568	c.2398G>A	c.(2398-2400)GCT>ACT	p.A800T	AMOTL1_uc001pfc.2_Missense_Mutation_p.A750T	NM_130847	NP_570899	Q8IY63	AMOL1_HUMAN	angiomotin like 1	800						cytoplasm|tight junction	identical protein binding			ovary(1)|breast(1)	2		Acute lymphoblastic leukemia(157;2.38e-05)|all_hematologic(158;0.00824)				CATAGCAGCAGCTACTGGGAC	0.567													15	30					0	0	0.004990	0	0	
MMP1	4312	broad.mit.edu	37	11	102665947	102665947	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:102665947G>A	uc001phi.2	-	6	1000	c.857C>T	c.(856-858)GCT>GTT	p.A286V	uc001phh.1_RNA|MMP1_uc010ruv.1_Missense_Mutation_p.A220V	NM_002421	NP_002412	P03956	MMP1_HUMAN	matrix metalloproteinase 1 isoform 1	286	Hemopexin-like 1.				blood coagulation|collagen catabolic process|interspecies interaction between organisms|leukocyte migration|proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(2)|ovary(1)|lung(1)	4	all_epithelial(12;0.0127)	all_neural(303;0.000318)|all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.072)|Lung(13;0.0828)|LUSC - Lung squamous cell carcinoma(19;0.151)|all cancers(10;0.233)	OV - Ovarian serous cystadenocarcinoma(223;1.82e-07)|Epithelial(105;1.51e-06)|BRCA - Breast invasive adenocarcinoma(274;0.014)		CGTAGTTATAGCATCAAAGGT	0.408													20	52					0	0	0.001882	0	0	
DYNC2H1	79659	broad.mit.edu	37	11	102987424	102987424	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:102987424G>A	uc001pho.2	+	5	891	c.747G>A	c.(745-747)TTG>TTA	p.L249L	DYNC2H1_uc001phn.1_Silent_p.L249L|DYNC2H1_uc009yxe.1_Silent_p.L249L	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	249	Stem (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		CACGAATGTTGCATCTCTTAG	0.343													30	138					0	0	0.004289	0	0	
KIAA1826	84437	broad.mit.edu	37	11	105880317	105880317	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:105880317C>T	uc001piy.2	-	3	1156	c.983G>A	c.(982-984)CGC>CAC	p.R328H	KIAA1826_uc001piz.2_Missense_Mutation_p.R328H	NM_032424	NP_115800	Q8NCY6	K1826_HUMAN	hypothetical protein LOC84437	328	Potential.					nucleus				breast(1)	1		Melanoma(852;0.000878)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0321)		BRCA - Breast invasive adenocarcinoma(274;5.56e-05)|Epithelial(105;0.00432)|all cancers(92;0.0309)		TACCTGTAAGCGTTCCTTTTC	0.393													5	100					0	0	0.000602	0	0	
GUCY1A2	2977	broad.mit.edu	37	11	106558464	106558464	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:106558464T>A	uc001pjg.1	-	8	2400	c.2010A>T	c.(2008-2010)GAA>GAT	p.E670D	GUCY1A2_uc010rvo.1_Missense_Mutation_p.E691D|GUCY1A2_uc009yxn.1_Missense_Mutation_p.E701D	NM_000855	NP_000846	P33402	GCYA2_HUMAN	guanylate cyclase 1, soluble, alpha 2	670					intracellular signal transduction|platelet activation	cytoplasm	GTP binding|guanylate cyclase activity|heme binding			large_intestine(3)|lung(2)|pancreas(2)|ovary(1)	8		all_epithelial(67;3.66e-05)|Melanoma(852;0.000382)|Acute lymphoblastic leukemia(157;0.001)|all_hematologic(158;0.0017)|Breast(348;0.026)|all_neural(303;0.068)		BRCA - Breast invasive adenocarcinoma(274;8.04e-05)|Epithelial(105;0.0036)|all cancers(92;0.0476)		ATGTGAAACTTTCTTCTCGTT	0.403													26	72					0	0	0.006320	0	0	
LOC643923	643923	broad.mit.edu	37	11	107462667	107462667	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:107462667G>A	uc001pjo.1	+	1	197	c.184G>A	c.(184-186)GCC>ACC	p.A62T	ELMOD1_uc010rvs.1_Intron|ELMOD1_uc001pjm.2_Intron|ELMOD1_uc010rvt.1_Intron	NM_001039772	NP_001034861			SubName: Full=cDNA FLJ25337 fis, clone TST00714; SubName: Full=HCG2032453;												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;2.61e-05)|Epithelial(105;0.000155)|all cancers(92;0.00283)		GTTGAGCTGCGCCTCCTCCAA	0.657													7	7					0	0	0.004482	0	0	
CUL5	8065	broad.mit.edu	37	11	107920682	107920682	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:107920682C>A	uc001pjv.2	+	4	967	c.300C>A	c.(298-300)TTC>TTA	p.F100L	CUL5_uc001pju.2_RNA	NM_003478	NP_003469	Q93034	CUL5_HUMAN	Vasopressin-activated calcium-mobilizing	100					cell cycle arrest|cell proliferation|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|ubiquitin-dependent protein catabolic process|viral reproduction	cullin-RING ubiquitin ligase complex|cytosol	calcium channel activity|receptor activity|ubiquitin protein ligase binding			ovary(1)	1		all_cancers(61;7.09e-10)|all_epithelial(67;2.97e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|Melanoma(852;4.48e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;3.58e-05)|Epithelial(105;4.68e-05)|all cancers(92;0.00122)|OV - Ovarian serous cystadenocarcinoma(223;0.217)		GGCGAAAGTTCTTTACACAAT	0.338													24	56					3.28513e-13	3.56435e-13	0.003954	1	0	
ACAT1	38	broad.mit.edu	37	11	108013239	108013239	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:108013239C>T	uc001pjy.2	+	9	978	c.902C>T	c.(901-903)GCG>GTG	p.A301V	ACAT1_uc001pjx.2_Missense_Mutation_p.A175V	NM_000019	NP_000010	P24752	THIL_HUMAN	acetyl-Coenzyme A acetyltransferase 1 precursor	301			A -> P (in 3KTD; 5% normal activity).		acetoacetic acid biosynthetic process|branched chain family amino acid catabolic process|ketone body biosynthetic process|ketone body catabolic process	mitochondrial matrix	acetyl-CoA C-acetyltransferase activity|metal ion binding			ovary(3)	3		all_cancers(61;6.41e-10)|all_epithelial(67;2.83e-06)|Melanoma(852;1.46e-05)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;2.96e-05)|Epithelial(105;4.35e-05)|all cancers(92;0.00108)|OV - Ovarian serous cystadenocarcinoma(223;0.192)	Sulfasalazine(DB00795)	GCAGATGCAGCGAAGAGGCTC	0.338													8	26					0	0	0.004482	0	0	
NPAT	4863	broad.mit.edu	37	11	108043647	108043647	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:108043647C>T	uc001pjz.3	-	13	2166	c.2064G>A	c.(2062-2064)ACG>ACA	p.T688T	NPAT_uc010rvv.1_5'Flank|NPAT_uc001pka.2_Silent_p.T483T	NM_002519	NP_002510	Q14207	NPAT_HUMAN	nuclear protein,  ataxia-telangiectasia locus	688					positive regulation of transcription, DNA-dependent|regulation of transcription involved in G1/S phase of mitotic cell cycle	Cajal body	protein C-terminus binding|protein N-terminus binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity			ovary(2)	2		all_cancers(61;2.31e-10)|all_epithelial(67;1.11e-06)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;1.05e-05)|Epithelial(105;3.01e-05)|all cancers(92;0.000816)|Colorectal(284;0.116)		CTTCTGGAGGCGTCAGTGCAA	0.433													16	51					0	0	0.004007	0	0	
EXPH5	23086	broad.mit.edu	37	11	108409786	108409786	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:108409786C>A	uc001pkk.2	-	3	519	c.408G>T	c.(406-408)AAG>AAT	p.K136N	EXPH5_uc010rvy.1_5'Flank|EXPH5_uc010rvz.1_5'Flank|EXPH5_uc010rwa.1_Missense_Mutation_p.K60N	NM_015065	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5 isoform a	136					intracellular protein transport		Rab GTPase binding			skin(3)|ovary(2)	5		all_cancers(61;3.99e-08)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;4.04e-05)|all_epithelial(67;0.000116)|all_hematologic(158;0.000315)|Breast(348;0.104)|all_neural(303;0.16)		Epithelial(105;8.1e-06)|BRCA - Breast invasive adenocarcinoma(274;1.22e-05)|all cancers(92;0.000129)|OV - Ovarian serous cystadenocarcinoma(223;0.11)|Colorectal(284;0.184)		TTGAAGTCTCCTTTCCAGATT	0.438													26	132					1.50538e-07	1.60433e-07	0.006320	1	0	
DDX10	1662	broad.mit.edu	37	11	108577481	108577481	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:108577481T>C	uc001pkm.2	+	10	1304	c.1239T>C	c.(1237-1239)GGT>GGC	p.G413G	DDX10_uc001pkl.1_Silent_p.G413G	NM_004398	NP_004389	Q13206	DDX10_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 10	413	Helicase C-terminal.						ATP binding|ATP-dependent helicase activity|RNA binding|RNA helicase activity			breast(2)|lung(1)|prostate(1)	4		all_cancers(61;1.29e-11)|all_epithelial(67;2.96e-07)|Melanoma(852;1.54e-05)|Acute lymphoblastic leukemia(157;4.24e-05)|all_hematologic(158;0.000141)|Breast(348;0.026)|all_neural(223;0.0729)		BRCA - Breast invasive adenocarcinoma(274;2.48e-05)|Epithelial(105;4.35e-05)|all cancers(92;0.000609)|OV - Ovarian serous cystadenocarcinoma(223;0.133)		AAGAGGATGGTGAAGCTTTGC	0.363			T	NUP98	AML*								38	149					0	0	0.003610	0	0	
ZC3H12C	85463	broad.mit.edu	37	11	110035523	110035523	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:110035523G>A	uc009yxw.2	+	6	1764	c.1713G>A	c.(1711-1713)ACG>ACA	p.T571T	ZC3H12C_uc010rwc.1_Silent_p.T572T|ZC3H12C_uc010rwd.1_Silent_p.T572T|ZC3H12C_uc001pkr.3_Silent_p.T540T	NM_033390	NP_203748	Q9C0D7	ZC12C_HUMAN	zinc finger CCCH-type containing 12C	571							endonuclease activity|nucleic acid binding|zinc ion binding				0		all_cancers(61;3.24e-13)|all_epithelial(67;1.27e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;3.95e-05)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;1.72e-06)|BRCA - Breast invasive adenocarcinoma(274;1.17e-05)|all cancers(92;9e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0279)		ATCATGGAACGCCAATGCCTT	0.438													8	92					0	0	0.008291	0	0	
ZC3H12C	85463	broad.mit.edu	37	11	110035979	110035979	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:110035979C>T	uc009yxw.2	+	6	2220	c.2169C>T	c.(2167-2169)GGC>GGT	p.G723G	ZC3H12C_uc010rwc.1_Silent_p.G724G|ZC3H12C_uc010rwd.1_Silent_p.G724G|ZC3H12C_uc001pkr.3_Silent_p.G692G	NM_033390	NP_203748	Q9C0D7	ZC12C_HUMAN	zinc finger CCCH-type containing 12C	723							endonuclease activity|nucleic acid binding|zinc ion binding				0		all_cancers(61;3.24e-13)|all_epithelial(67;1.27e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;3.95e-05)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;1.72e-06)|BRCA - Breast invasive adenocarcinoma(274;1.17e-05)|all cancers(92;9e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0279)		GCTGTCCTGGCGACTACCCCT	0.587													7	91					0	0	0.003080	0	0	
RDX	5962	broad.mit.edu	37	11	110102620	110102620	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:110102620G>A	uc001pku.2	-	14	2036	c.1726C>T	c.(1726-1728)CGT>TGT	p.R576C	RDX_uc009yxx.1_RNA|RDX_uc009yxy.2_Missense_Mutation_p.R576C|RDX_uc009yxz.2_Missense_Mutation_p.R229C|RDX_uc009yya.2_Missense_Mutation_p.R172C|RDX_uc001pks.2_Missense_Mutation_p.R110C|RDX_uc001pkt.2_Missense_Mutation_p.R230C|RDX_uc010rwe.1_Missense_Mutation_p.R440C	NM_002906	NP_002897	P35241	RADI_HUMAN	radixin	576					actin filament capping	cleavage furrow|cytoskeleton|extrinsic to membrane|Golgi apparatus|nucleolus|plasma membrane	actin binding				0		all_cancers(61;7.18e-13)|all_epithelial(67;2.61e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;3.95e-05)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;1.13e-06)|BRCA - Breast invasive adenocarcinoma(274;9.75e-06)|all cancers(92;5.9e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0248)		TCATCGATACGCTGCTTTGTA	0.403													18	225					0	0	0.010504	0	0	
ARHGAP20	57569	broad.mit.edu	37	11	110451712	110451712	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:110451712C>T	uc001pkz.1	-	16	2243	c.1958G>A	c.(1957-1959)CGG>CAG	p.R653Q	ARHGAP20_uc001pky.1_Missense_Mutation_p.R630Q|ARHGAP20_uc009yyb.1_Missense_Mutation_p.R617Q|ARHGAP20_uc001pla.1_Missense_Mutation_p.R617Q|ARHGAP20_uc001plb.2_Missense_Mutation_p.R196Q	NM_020809	NP_065860	Q9P2F6	RHG20_HUMAN	Rho GTPase activating protein 20	653					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(3)|kidney(2)	5		all_cancers(61;3.26e-12)|all_epithelial(67;6.09e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;0.000484)|Acute lymphoblastic leukemia(157;0.000967)|all_neural(223;0.0199)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;3.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|all cancers(92;0.000147)|OV - Ovarian serous cystadenocarcinoma(223;0.0475)		TTCAAGAGGCCGTTTCATTTG	0.502													10	13					0	0	0.008291	0	0	
ARHGAP20	57569	broad.mit.edu	37	11	110477373	110477373	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:110477373C>A	uc001pkz.1	-	10	1161	c.876G>T	c.(874-876)GAG>GAT	p.E292D	ARHGAP20_uc001pky.1_Missense_Mutation_p.E269D|ARHGAP20_uc009yyb.1_Missense_Mutation_p.E256D|ARHGAP20_uc001pla.1_Missense_Mutation_p.E256D	NM_020809	NP_065860	Q9P2F6	RHG20_HUMAN	Rho GTPase activating protein 20	292	Ras-associating.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(3)|kidney(2)	5		all_cancers(61;3.26e-12)|all_epithelial(67;6.09e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;0.000484)|Acute lymphoblastic leukemia(157;0.000967)|all_neural(223;0.0199)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;3.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|all cancers(92;0.000147)|OV - Ovarian serous cystadenocarcinoma(223;0.0475)		TAAGGAAGGGCTCCTGGAGGT	0.542													8	125					6.40141e-05	6.72605e-05	0.000978	1	0	
SIK2	23235	broad.mit.edu	37	11	111582989	111582989	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:111582989C>T	uc001plt.2	+	9	1274	c.1156C>T	c.(1156-1158)CGA>TGA	p.R386*		NM_015191	NP_056006	Q9H0K1	SIK2_HUMAN	SNF1-like kinase 2	386					intracellular protein kinase cascade|regulation of insulin receptor signaling pathway	Golgi apparatus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|skin(1)	3						GAGGCTGCTGCGATCTGCCCT	0.532													18	46					0	0	0.007413	0	0	
TIMM8B	26521	broad.mit.edu	37	11	111956131	111956131	+	Missense_Mutation	SNP	C	T	T	rs116405897	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:111956131C>T	uc001pmx.2	-	2	152	c.140G>A	c.(139-141)CGC>CAC	p.R47H	TIMM8B_uc001pmy.2_RNA|SDHD_uc001pmz.2_5'Flank	NM_012459	NP_036591	Q9Y5J9	TIM8B_HUMAN	translocase of inner mitochondrial membrane 8	47	Twin CX3C motif.				protein import into mitochondrial inner membrane|sensory perception of sound|transmembrane transport	mitochondrial inner membrane presequence translocase complex|mitochondrial intermembrane space protein transporter complex	protein binding|zinc ion binding				0		all_cancers(61;1.84e-10)|all_epithelial(67;9.33e-06)|Melanoma(852;4.01e-05)|all_hematologic(158;0.000885)|Acute lymphoblastic leukemia(157;0.000966)|Breast(348;0.0512)|Medulloblastoma(222;0.0523)|all_neural(223;0.0663)		Epithelial(105;6.01e-07)|BRCA - Breast invasive adenocarcinoma(274;6.17e-07)|all cancers(92;1.03e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0512)		AGAGTCTAGGCGATTCCCTGG	0.463													9	40					0	0	0.008291	0	0	
BCO2	83875	broad.mit.edu	37	11	112050080	112050080	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:112050080G>A	uc001pnf.2	+	2	285	c.168G>A	c.(166-168)CCG>CCA	p.P56P	BCO2_uc001pne.1_Intron|BCO2_uc001png.2_Silent_p.P56P|BCO2_uc001pnh.2_Silent_p.P22P|BCO2_uc010rwt.1_Intron|BCO2_uc009yyn.2_Silent_p.P22P|BCO2_uc001pni.2_Silent_p.P22P	NM_031938	NP_114144	Q9BYV7	BCDO2_HUMAN	beta-carotene dioxygenase 2 isoform a	56					carotene metabolic process|retinal metabolic process|retinoic acid metabolic process		metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						GTGTTGCACCGCTGCTGACCA	0.517													6	59					0	0	0.001984	0	0	
BCO2	83875	broad.mit.edu	37	11	112071486	112071486	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:112071486G>A	uc001pnf.2	+	7	1133	c.1016G>A	c.(1015-1017)CGC>CAC	p.R339H	BCO2_uc001pne.1_Missense_Mutation_p.R166H|BCO2_uc001png.2_Missense_Mutation_p.R266H|BCO2_uc001pnh.2_Missense_Mutation_p.R305H|BCO2_uc010rwt.1_Missense_Mutation_p.R234H|BCO2_uc009yyn.2_Missense_Mutation_p.R305H|BCO2_uc001pni.2_Missense_Mutation_p.R305H	NM_031938	NP_114144	Q9BYV7	BCDO2_HUMAN	beta-carotene dioxygenase 2 isoform a	339					carotene metabolic process|retinal metabolic process|retinoic acid metabolic process		metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						GTGGAAAAACGCACTGGACAG	0.388													7	121					0	0	0.003080	0	0	
CLDN25	644672	broad.mit.edu	37	11	113651128	113651128	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:113651128T>C	uc009yyw.1	+	1	611	c.611T>C	c.(610-612)GTC>GCC	p.V204A		NM_001101389	NP_001094859	C9JDP6	CLD25_HUMAN	claudin 25	204	Cytoplasmic (Potential).					integral to membrane|tight junction	structural molecule activity				0						GGTCCCACAGTCCCCCTATCC	0.547													20	42					0	0	0.010504	0	0	
NNMT	4837	broad.mit.edu	37	11	114182863	114182863	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:114182863C>T	uc001por.1	+	5	723	c.459C>T	c.(457-459)CCC>CCT	p.P153P	NNMT_uc001pos.1_Silent_p.P153P	NM_006169	NP_006160	P40261	NNMT_HUMAN	nicotinamide N-methyltransferase	153					xenobiotic metabolic process	cytosol	nicotinamide N-methyltransferase activity|pyridine N-methyltransferase activity			ovary(1)	1		all_cancers(61;4.83e-16)|all_epithelial(67;7.28e-09)|all_hematologic(158;0.000135)|Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0906)		BRCA - Breast invasive adenocarcinoma(274;2.79e-06)|Epithelial(105;1.32e-05)|all cancers(92;0.000144)|OV - Ovarian serous cystadenocarcinoma(223;0.128)	Niacin(DB00627)	GGGCCGTCCCCTTACCCCCGG	0.627													4	33					0	0	0.001168	0	0	
RBM7	10179	broad.mit.edu	37	11	114278293	114278293	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:114278293T>C	uc001pov.2	+	5	575	c.565T>C	c.(565-567)TGG>CGG	p.W189R	RBM7_uc001pow.2_Missense_Mutation_p.W190R|RBM7_uc001pox.2_Missense_Mutation_p.W69R	NM_016090	NP_057174	Q9Y580	RBM7_HUMAN	RNA binding motif protein 7	189					meiosis		nucleotide binding|protein binding|RNA binding			ovary(2)	2		all_cancers(61;5.06e-12)|all_epithelial(67;5.3e-06)|all_hematologic(158;7.68e-05)|Acute lymphoblastic leukemia(157;0.000966)|Melanoma(852;0.00153)|Medulloblastoma(222;0.0523)|all_neural(223;0.0663)|Breast(348;0.0818)|Prostate(24;0.104)		BRCA - Breast invasive adenocarcinoma(274;2.56e-06)|Epithelial(105;4.17e-05)|all cancers(92;0.000348)		AAGCTCCCAGTGGCGCCAAGG	0.428													35	61					0	0	0.005524	0	0	
APOA5	116519	broad.mit.edu	37	11	116661211	116661211	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:116661211C>T	uc001ppr.2	-	3	742	c.734G>A	c.(733-735)CGC>CAC	p.R245H	ZNF259_uc001ppp.2_5'Flank|ZNF259_uc009yzd.2_5'Flank|ZNF259_uc001ppq.2_5'Flank|APOA5_uc009yze.2_Missense_Mutation_p.R245H|APOA5_uc009yzf.2_Missense_Mutation_p.R245H|APOA5_uc009yzg.2_Missense_Mutation_p.R271H	NM_052968	NP_443200	Q6Q788	APOA5_HUMAN	apolipoprotein AV precursor	245	Potential.				acylglycerol homeostasis|cholesterol homeostasis|lipid transport|lipoprotein metabolic process|positive regulation of fatty acid biosynthetic process|positive regulation of lipoprotein lipase activity|positive regulation of receptor-mediated endocytosis|positive regulation of triglyceride catabolic process|positive regulation of very-low-density lipoprotein particle remodeling|tissue regeneration|triglyceride catabolic process|triglyceride homeostasis	chylomicron|high-density lipoprotein particle|very-low-density lipoprotein particle	enzyme binding|heparin binding|lipoprotein lipase activator activity|low-density lipoprotein particle receptor binding|phosphatidylcholine binding				0	all_hematologic(175;0.0487)	all_cancers(61;3.31e-09)|all_epithelial(67;8.03e-06)|Breast(348;0.0126)|Melanoma(852;0.0153)|Acute lymphoblastic leukemia(157;0.0257)|Medulloblastoma(222;0.0425)|all_hematologic(158;0.0433)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|Epithelial(105;4.93e-06)|all cancers(92;0.000123)|OV - Ovarian serous cystadenocarcinoma(223;0.149)		CTGCTGGATGCGTGCGTGCAG	0.697													4	15					0	0	0.000602	0	0	
CEP164	22897	broad.mit.edu	37	11	117253605	117253605	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:117253605G>T	uc001prc.2	+	14	1818	c.1671G>T	c.(1669-1671)GAG>GAT	p.E557D	CEP164_uc001prb.2_Missense_Mutation_p.E560D|CEP164_uc010rxk.1_Missense_Mutation_p.E531D|CEP164_uc001prf.2_RNA|CEP164_uc009yzp.1_RNA|CEP164_uc001prg.1_5'Flank	NM_014956	NP_055771	Q9UPV0	CE164_HUMAN	centrosomal protein 164kDa	557	Glu-rich.				cell division|DNA repair|G2/M transition of mitotic cell cycle|mitosis	centriole|cytosol|nucleus				ovary(1)|central_nervous_system(1)	2	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;4e-05)|Epithelial(105;0.0008)		AAGAGGCAGAGGATCCTGAGG	0.637													8	20					1.06961e-07	1.14085e-07	0.003080	1	0	
DSCAML1	57453	broad.mit.edu	37	11	117308798	117308798	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:117308798G>A	uc001prh.1	-	25	4427	c.4425C>T	c.(4423-4425)GGC>GGT	p.G1475G		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	1415	Fibronectin type-III 5.|Extracellular (Potential).				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		GTAGCACGAAGCCTGCGGAGG	0.632													5	20					0	0	0.001984	0	0	
DSCAML1	57453	broad.mit.edu	37	11	117332302	117332302	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:117332302C>A	uc001prh.1	-	18	3458	c.3456G>T	c.(3454-3456)CAG>CAT	p.Q1152H		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	1092	Fibronectin type-III 3.|Extracellular (Potential).				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		TCTCAGGGGGCTGGCTGGGCA	0.627													13	31					7.93312e-07	8.4236e-07	0.002450	1	0	
TMPRSS13	84000	broad.mit.edu	37	11	117787928	117787928	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:117787928G>A	uc001prs.1	-	3	606	c.513C>T	c.(511-513)TGC>TGT	p.C171C	TMPRSS13_uc009yzr.1_Intron|TMPRSS13_uc001prt.1_5'UTR|TMPRSS13_uc001pru.1_Silent_p.C171C	NM_001077263	NP_001070731	Q9BYE2	TMPSD_HUMAN	transmembrane protease, serine 13	166	Helical; Signal-anchor for type II membrane protein; (Potential).				proteolysis	integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			pancreas(1)	1	all_hematologic(175;0.0487)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.78e-05)|Epithelial(105;0.00106)		GGAGGAGCACGCACCCGATGA	0.627													10	20					0	0	0.000978	0	0	
MLL	4297	broad.mit.edu	37	11	118369241	118369241	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:118369241G>A	uc001pta.2	+	22	5973	c.5950G>A	c.(5950-5952)GAA>AAA	p.E1984K	MLL_uc001ptb.2_Missense_Mutation_p.E1987K	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1984					apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		GATCAAAGGCGAAGTGAGAGA	0.264			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								28	140					0	0	0.007291	0	0	
MLL	4297	broad.mit.edu	37	11	118373253	118373253	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:118373253A>G	uc001pta.2	+	27	6660	c.6637A>G	c.(6637-6639)ATG>GTG	p.M2213V	MLL_uc001ptb.2_Missense_Mutation_p.M2216V	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	2213					apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		AATGTCTCCAATGAGAACTGG	0.478			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								10	57					0	0	0.001368	0	0	
PHLDB1	23187	broad.mit.edu	37	11	118501928	118501928	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:118501928G>A	uc001ptr.1	+	8	2185	c.1832G>A	c.(1831-1833)CGC>CAC	p.R611H	PHLDB1_uc001pts.2_Missense_Mutation_p.R611H|PHLDB1_uc001ptt.2_Missense_Mutation_p.R611H|PHLDB1_uc001ptu.1_Intron|PHLDB1_uc001ptv.1_Missense_Mutation_p.R411H|PHLDB1_uc001ptw.1_Missense_Mutation_p.R13H|PHLDB1_uc009zai.1_5'Flank|PHLDB1_uc001ptx.1_5'Flank	NM_015157	NP_055972	Q86UU1	PHLB1_HUMAN	pleckstrin homology-like domain, family B,	611											0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0523)|all_hematologic(192;0.0735)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)		CCCCAGGAACGCCAGCGCCTG	0.632													12	166					0	0	0.004007	0	0	
PHLDB1	23187	broad.mit.edu	37	11	118512986	118512986	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:118512986G>A	uc001ptr.1	+	14	3104	c.2751G>A	c.(2749-2751)CTG>CTA	p.L917L	PHLDB1_uc001pts.2_Silent_p.L917L|PHLDB1_uc001ptt.2_Intron|PHLDB1_uc001ptu.1_RNA|PHLDB1_uc001ptv.1_Silent_p.L717L|PHLDB1_uc001ptw.1_Intron|PHLDB1_uc009zai.1_Intron|PHLDB1_uc001ptx.1_Intron|PHLDB1_uc010ryi.1_Silent_p.L60L|PHLDB1_uc010ryj.1_Silent_p.L55L	NM_015157	NP_055972	Q86UU1	PHLB1_HUMAN	pleckstrin homology-like domain, family B,	917											0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0523)|all_hematologic(192;0.0735)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)		AGAAGCTGCTGCTCCCTGCTG	0.517													12	42					0	0	0.004990	0	0	
HYOU1	10525	broad.mit.edu	37	11	118921765	118921765	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:118921765G>A	uc001puu.2	-	14	1840	c.1647C>T	c.(1645-1647)GGC>GGT	p.G549G	HYOU1_uc001put.2_Silent_p.G514G|HYOU1_uc010ryu.1_Silent_p.G569G|HYOU1_uc010ryv.1_Silent_p.G438G|HYOU1_uc001pux.3_Silent_p.G549G|HYOU1_uc010ryw.1_RNA|HYOU1_uc001puw.1_Silent_p.G549G	NM_006389	NP_006380	Q9Y4L1	HYOU1_HUMAN	hypoxia up-regulated 1 precursor	549						endoplasmic reticulum lumen	ATP binding|protein binding				0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)|all_hematologic(192;0.207)		BRCA - Breast invasive adenocarcinoma(274;7.78e-05)		GACTGAGCACGCCACTCTCAT	0.537													9	37					0	0	0.004482	0	0	
VPS11	55823	broad.mit.edu	37	11	118949009	118949009	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:118949009C>T	uc010ryx.1	+	12	1930	c.1888C>T	c.(1888-1890)CGA>TGA	p.R630*	VPS11_uc010ryy.1_Nonsense_Mutation_p.R476*	NM_021729	NP_068375	Q9H270	VPS11_HUMAN	vacuolar protein sorting 11	630					protein transport	endocytic vesicle|HOPS complex|late endosome membrane|lysosomal membrane	nucleotide binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(1)	3	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.88e-05)		CCTTGAGCTGCGACTGCAGAA	0.567													35	81					0	0	0.006230	0	0	
MFRP	83552	broad.mit.edu	37	11	119213674	119213674	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:119213674C>T	uc001pwj.2	-	10	1324	c.1164G>A	c.(1162-1164)TCG>TCA	p.S388S	MFRP_uc010rzf.1_RNA|MFRP_uc010rzg.1_Missense_Mutation_p.R313H	NM_031433	NP_113621	Q9BXJ0	C1QT5_HUMAN	membrane frizzled-related protein	Error:Variant_position_missing_in_Q9BXJ0_after_alignment						collagen					0		Medulloblastoma(222;0.0523)|Breast(348;0.174)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.84e-05)		GCTCATGGTGCGAGGAGACGA	0.617													7	6					0	0	0.001984	0	0	
ARHGEF12	23365	broad.mit.edu	37	11	120317151	120317151	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:120317151G>A	uc001pxl.1	+	17	1392	c.1385G>A	c.(1384-1386)CGC>CAC	p.R462H	ARHGEF12_uc009zat.2_Missense_Mutation_p.R443H|ARHGEF12_uc010rzn.1_Missense_Mutation_p.R359H|ARHGEF12_uc009zau.1_Missense_Mutation_p.R359H	NM_015313	NP_056128	Q9NZN5	ARHGC_HUMAN	Rho guanine nucleotide exchange factor (GEF) 12	462	RGSL.				apoptosis|axon guidance|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(2)|breast(2)|skin(2)|ovary(1)	7		Breast(109;0.000813)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.0831)|all_hematologic(192;0.107)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.231)		GATCTGCATCGCCACTATATC	0.373			T	MLL	AML								13	59					0	0	0.002450	0	0	
UBASH3B	84959	broad.mit.edu	37	11	122650347	122650347	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:122650347C>T	uc001pyi.3	+	4	905	c.545C>T	c.(544-546)GCG>GTG	p.A182V		NM_032873	NP_116262	Q8TF42	UBS3B_HUMAN	ubiquitin associated and SH3 domain containing,	182						cytoplasm|nucleus	protein tyrosine phosphatase activity			central_nervous_system(1)	1		Breast(109;0.00254)|Medulloblastoma(222;0.00877)|Lung NSC(97;0.0183)|all_lung(97;0.0186)|all_neural(223;0.0381)|all_hematologic(192;0.104)		BRCA - Breast invasive adenocarcinoma(274;1.37e-05)|OV - Ovarian serous cystadenocarcinoma(99;0.0463)		GAAGACAGTGCGGAGGTCCTC	0.562													17	63					0	0	0.007413	0	0	
ASAM	79827	broad.mit.edu	37	11	122955287	122955287	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:122955287G>A	uc001pyt.2	-	3	680	c.321C>T	c.(319-321)GGC>GGT	p.G107G		NM_024769	NP_079045	Q9H6B4	CLMP_HUMAN	adipocyte-specific adhesion molecule precursor	107	Ig-like C2-type 1.|Extracellular (Potential).					integral to membrane|tight junction					0		Breast(109;0.0025)|Lung NSC(97;0.0179)|all_lung(97;0.0182)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.73e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0446)		AGGTGTACCGGCCCTCATCAC	0.498													18	51					0	0	0.006122	0	0	
GRAMD1B	57476	broad.mit.edu	37	11	123479434	123479434	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:123479434C>T	uc001pyx.2	+	11	1481	c.1152C>T	c.(1150-1152)AGC>AGT	p.S384S	GRAMD1B_uc001pyw.2_Silent_p.S391S|GRAMD1B_uc010rzw.1_Silent_p.S344S|GRAMD1B_uc010rzx.1_Silent_p.S344S|GRAMD1B_uc009zbe.1_Silent_p.S380S|GRAMD1B_uc001pyy.2_Silent_p.S75S	NM_020716	NP_065767	Q3KR37	GRM1B_HUMAN	GRAM domain containing 1B	384						integral to membrane				ovary(1)	1		Breast(109;0.00204)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.32e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0394)		TCAACTTCAGCGTGGACAAGC	0.542													5	18					0	0	0.001168	0	0	
ZNF202	7753	broad.mit.edu	37	11	123596942	123596942	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:123596942G>A	uc001pzd.1	-	9	2110	c.1710C>T	c.(1708-1710)TGC>TGT	p.C570C	ZNF202_uc001pzc.1_Silent_p.C346C|ZNF202_uc001pze.1_Silent_p.C570C|ZNF202_uc001pzf.1_Silent_p.C570C	NM_003455	NP_003446	O95125	ZN202_HUMAN	zinc finger protein 202	570	C2H2-type 6.				lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter|viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		Breast(109;0.00204)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.03)		AGCAGCGCCCGCACTCGCTGC	0.607													7	31					0	0	0.003080	0	0	
OR6M1	390261	broad.mit.edu	37	11	123676505	123676505	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:123676505C>T	uc010rzz.1	-	1	553	c.553G>A	c.(553-555)GCC>ACC	p.A185T		NM_001005325	NP_001005325	Q8NGM8	OR6M1_HUMAN	olfactory receptor, family 6, subfamily M,	185	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Breast(109;0.0109)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.028)		TTTATACAGGCCACCTGAAGA	0.443													10	46					0	0	0.008291	0	0	
OR10G8	219869	broad.mit.edu	37	11	123900389	123900389	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:123900389G>A	uc001pzp.1	+	1	60	c.60G>A	c.(58-60)GCG>GCA	p.A20A		NM_001004464	NP_001004464	Q8NGN5	O10G8_HUMAN	olfactory receptor, family 10, subfamily G,	20	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)		ATGCCCCAGCGCTGGACGCCC	0.572													26	108					0	0	0.008361	0	0	
OR10G8	219869	broad.mit.edu	37	11	123900887	123900887	+	Silent	SNP	G	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:123900887G>C	uc001pzp.1	+	1	558	c.558G>C	c.(556-558)CTG>CTC	p.L186L		NM_001004464	NP_001004464	Q8NGN5	O10G8_HUMAN	olfactory receptor, family 10, subfamily G,	186	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)		TCCTGAAACTGGCCTGTGCAG	0.512													8	128					0	0	0.008291	0	0	
OR8B3	390271	broad.mit.edu	37	11	124266483	124266483	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:124266483C>T	uc010saj.1	-	1	765	c.765G>A	c.(763-765)GCG>GCA	p.A255A	OR8B2_uc001qab.3_Intron	NM_001005467	NP_001005467	Q8NGG8	OR8B3_HUMAN	olfactory receptor, family 8, subfamily B,	255	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		ACATGAATGCCGCTGACCCAA	0.398													36	72					0	0	0.003610	0	0	
OR8B8	26493	broad.mit.edu	37	11	124310510	124310510	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:124310510C>T	uc010sal.1	-	1	472	c.472G>A	c.(472-474)GCC>ACC	p.A158T		NM_012378	NP_036510	Q15620	OR8B8_HUMAN	olfactory receptor, family 8, subfamily B,	158	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		GCTGTGTGGGCCATGGCCCCA	0.527													21	54					0	0	0.010504	0	0	
ESAM	90952	broad.mit.edu	37	11	124623849	124623849	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:124623849G>A	uc001qav.3	-	7	1039	c.866C>T	c.(865-867)GCC>GTC	p.A289V	VSIG2_uc001qas.2_5'Flank|VSIG2_uc001qat.2_5'Flank|ESAM_uc010sao.1_Intron|ESAM_uc001qau.3_Missense_Mutation_p.A216V|ESAM_uc001qaw.3_RNA|ESAM_uc001qax.3_RNA|ESAM_uc009zbi.2_Missense_Mutation_p.P288S	NM_138961	NP_620411	Q96AP7	ESAM_HUMAN	endothelial cell adhesion molecule precursor	289	Cytoplasmic (Potential).				blood coagulation|leukocyte migration	adherens junction|integral to membrane|tight junction					0	all_hematologic(175;0.215)	Breast(109;0.00109)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.022)		GGGAGCAATGGCATCCTCCCT	0.562													4	10					0	0	0.001168	0	0	
ESAM	90952	broad.mit.edu	37	11	124624540	124624540	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:124624540T>C	uc001qav.3	-	5	900	c.727A>G	c.(727-729)ACA>GCA	p.T243A	VSIG2_uc001qas.2_5'Flank|VSIG2_uc001qat.2_5'Flank|ESAM_uc010sao.1_Missense_Mutation_p.T64A|ESAM_uc001qau.3_Missense_Mutation_p.T170A|ESAM_uc001qaw.3_RNA|ESAM_uc001qax.3_RNA|ESAM_uc009zbi.2_Missense_Mutation_p.T243A	NM_138961	NP_620411	Q96AP7	ESAM_HUMAN	endothelial cell adhesion molecule precursor	243	Extracellular (Potential).				blood coagulation|leukocyte migration	adherens junction|integral to membrane|tight junction					0	all_hematologic(175;0.215)	Breast(109;0.00109)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.022)		CACTGACCTGTGCTCACTTCC	0.557													37	110					0	0	0.006230	0	0	
ROBO3	64221	broad.mit.edu	37	11	124735609	124735609	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:124735609C>T	uc001qbc.2	+	1	328	c.136C>T	c.(136-138)CCT>TCT	p.P46S		NM_022370	NP_071765	Q96MS0	ROBO3_HUMAN	roundabout, axon guidance receptor, homolog 3	46	Extracellular (Potential).				axon midline choice point recognition	integral to membrane	receptor activity			breast(1)|central_nervous_system(1)	2	all_hematologic(175;0.215)	Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|Breast(109;0.0481)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0296)		CACCCTGCTGCCTCCCGGCGA	0.632											OREG0021466	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	7					0	0	0.009096	0	0	
ROBO3	64221	broad.mit.edu	37	11	124749437	124749437	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:124749437G>T	uc001qbc.2	+	25	3954	c.3762G>T	c.(3760-3762)AAG>AAT	p.K1254N	ROBO3_uc001qbd.2_Missense_Mutation_p.K179N|ROBO3_uc010sar.1_Missense_Mutation_p.K303N|ROBO3_uc001qbe.2_Missense_Mutation_p.K179N|ROBO3_uc001qbf.1_Missense_Mutation_p.K138N	NM_022370	NP_071765	Q96MS0	ROBO3_HUMAN	roundabout, axon guidance receptor, homolog 3	1254	Cytoplasmic (Potential).				axon midline choice point recognition	integral to membrane	receptor activity			breast(1)|central_nervous_system(1)	2	all_hematologic(175;0.215)	Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|Breast(109;0.0481)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0296)		AGAAACCCAAGGCTCTTCCCT	0.602													5	16					1.26484e-09	1.35768e-09	0.003080	1	0	
SLC37A2	219855	broad.mit.edu	37	11	124955002	124955002	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:124955002C>T	uc001qbn.2	+	14	1466	c.1215C>T	c.(1213-1215)TAC>TAT	p.Y405Y	SLC37A2_uc010sau.1_Silent_p.Y405Y|SLC37A2_uc010sav.1_Silent_p.Y30Y|SLC37A2_uc001qbp.2_Silent_p.Y30Y	NM_001145290	NP_001138762	Q8TED4	SPX2_HUMAN	solute carrier family 37 (glycerol-3-phosphate	405	Helical; (Potential).				carbohydrate transport|transmembrane transport	integral to membrane				ovary(2)	2	all_hematologic(175;0.215)	Breast(109;0.012)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.152)|all_lung(97;0.159)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.61e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0384)		ATGGCCCATACGCGCTCATCA	0.627													11	26					0	0	0.001368	0	0	
PKNOX2	63876	broad.mit.edu	37	11	125267792	125267792	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:125267792T>C	uc001qbu.2	+	7	736	c.422T>C	c.(421-423)CTG>CCG	p.L141P	PKNOX2_uc010saz.1_Missense_Mutation_p.L112P|PKNOX2_uc010sba.1_Missense_Mutation_p.L112P|PKNOX2_uc010sbb.1_Missense_Mutation_p.L77P	NM_022062	NP_071345	Q96KN3	PKNX2_HUMAN	PBX/knotted 1 homeobox 2	141						nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3		Breast(109;0.00234)|all_lung(97;0.0191)|Lung NSC(97;0.0196)|Medulloblastoma(222;0.0447)|all_neural(223;0.116)		BRCA - Breast invasive adenocarcinoma(274;5.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.117)		ATCCAGGTCCTGAGAATCCAC	0.547													5	103					0	0	0.000602	0	0	
CDON	50937	broad.mit.edu	37	11	125853941	125853941	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:125853941T>C	uc009zbw.2	-	16	2949	c.2821A>G	c.(2821-2823)ACC>GCC	p.T941A	CDON_uc001qdb.3_Missense_Mutation_p.T318A|CDON_uc001qdc.3_Missense_Mutation_p.T941A	NM_016952	NP_058648	Q4KMG0	CDON_HUMAN	surface glycoprotein, Ig superfamily member	941	Extracellular (Potential).				cell adhesion|muscle cell differentiation|positive regulation of muscle cell differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|skin(2)|breast(1)	6	all_hematologic(175;0.177)	Breast(109;0.00157)|Lung NSC(97;0.0127)|all_lung(97;0.0133)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.51e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0604)		TTTGGAGGGGTACTCAAGTCT	0.458													17	32					0	0	0.008871	0	0	
FOXRED1	55572	broad.mit.edu	37	11	126144908	126144908	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:126144908C>T	uc001qdi.2	+	5	670	c.623C>T	c.(622-624)GCG>GTG	p.A208V	FOXRED1_uc010sbn.1_Missense_Mutation_p.A38V|FOXRED1_uc010sbo.1_Intron|FOXRED1_uc010sbp.1_Missense_Mutation_p.A21V|FOXRED1_uc010sbq.1_Missense_Mutation_p.A75V|FOXRED1_uc001qdj.2_Intron|FOXRED1_uc010sbr.1_Missense_Mutation_p.A194V|FOXRED1_uc001qdk.2_Intron	NM_017547	NP_060017	Q96CU9	FXRD1_HUMAN	FAD-dependent oxidoreductase domain containing	208						integral to membrane|mitochondrion	oxidoreductase activity|protein binding				0	all_hematologic(175;0.145)	Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0739)|all_lung(97;0.0798)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0729)		GTGGCTTTGGCGTCTTATGGT	0.517													9	33					0	0	0.008291	0	0	
ETS1	2113	broad.mit.edu	37	11	128350146	128350146	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:128350146G>A	uc010sbs.1	-	6	1247	c.931C>T	c.(931-933)CGT>TGT	p.R311C	ETS1_uc001qej.2_Missense_Mutation_p.R355C|ETS1_uc009zch.2_Missense_Mutation_p.R95C|ETS1_uc009zcg.2_Intron	NM_005238	NP_005229	P14921	ETS1_HUMAN	v-ets erythroblastosis virus E26 oncogene	311					cell motility|immune response|induction of apoptosis|negative regulation of cell cycle|negative regulation of cell cycle|negative regulation of cell proliferation|PML body organization|positive regulation of cellular component movement|positive regulation of erythrocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|response to antibiotic|transcription from RNA polymerase II promoter	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			lung(4)|central_nervous_system(1)|pleura(1)	6	all_hematologic(175;0.0537)	Lung NSC(97;0.000542)|all_lung(97;0.000665)|Breast(109;0.00765)|all_neural(223;0.0351)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;1.47e-05)|OV - Ovarian serous cystadenocarcinoma(99;0.0174)|LUSC - Lung squamous cell carcinoma(976;0.0815)|Lung(307;0.0833)		AGGTCAGCACGGTCCCGCACA	0.597													8	17					0	0	0.004482	0	0	
C11orf45	219833	broad.mit.edu	37	11	128773396	128773396	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:128773396G>T	uc001qeu.2	-	3	341	c.147C>A	c.(145-147)GCC>GCA	p.A49A	KCNJ5_uc001qet.2_Intron|KCNJ5_uc009zck.2_Intron|C11orf45_uc009zcl.2_Silent_p.A49A|C11orf45_uc001qev.2_Silent_p.A49A	NM_145013	NP_659450	Q8TAV5	CK045_HUMAN	hypothetical protein LOC219833 precursor	49						extracellular region					0	all_hematologic(175;0.0641)	Lung NSC(97;0.00521)|Breast(109;0.00715)|all_lung(97;0.0111)|Medulloblastoma(222;0.0523)|all_neural(223;0.186)		OV - Ovarian serous cystadenocarcinoma(99;0.00531)|LUSC - Lung squamous cell carcinoma(976;0.0193)|Lung(977;0.0195)		TCCTGACAGAGGCAGACCTGC	0.512													6	24					5.18039e-06	5.47617e-06	0.003080	1	0	
ARHGAP32	9743	broad.mit.edu	37	11	128993351	128993351	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:128993351C>T	uc009zcp.2	-	4	392	c.392G>A	c.(391-393)GGC>GAC	p.G131D	ARHGAP32_uc009zcq.1_Missense_Mutation_p.G91D	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	131	PX; atypical.				cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						CTGTATGCTGCCGAACTCAAC	0.323													10	31					0	0	0.001368	0	0	
TMEM45B	120224	broad.mit.edu	37	11	129722528	129722528	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:129722528G>A	uc001qfe.1	+	2	212	c.151G>A	c.(151-153)GCA>ACA	p.A51T	TMEM45B_uc001qff.1_Missense_Mutation_p.A51T	NM_138788	NP_620143	Q96B21	TM45B_HUMAN	transmembrane protein 45B	51	Helical; (Potential).					integral to membrane					0	all_hematologic(175;0.0537)	Breast(109;0.00526)|Lung NSC(97;0.00901)|all_lung(97;0.018)|Medulloblastoma(222;0.0523)|all_neural(223;0.186)		OV - Ovarian serous cystadenocarcinoma(99;0.012)|Lung(977;0.179)|LUSC - Lung squamous cell carcinoma(976;0.189)		CGTCGAAGCCGCAATTAGGAC	0.488													17	48					0	0	0.001882	0	0	
NFRKB	4798	broad.mit.edu	37	11	129740016	129740016	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:129740016C>T	uc001qfi.2	-	24	3105	c.2904G>A	c.(2902-2904)ACG>ACA	p.T968T	NFRKB_uc001qfg.2_Silent_p.T993T|NFRKB_uc001qfh.2_Silent_p.T991T|NFRKB_uc010sbw.1_Silent_p.T978T|NFRKB_uc009zcr.2_Silent_p.T254T	NM_001143835	NP_001137307	Q6P4R8	NFRKB_HUMAN	nuclear factor related to kappaB binding protein	968					DNA recombination|DNA repair|inflammatory response|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	Ino80 complex	DNA binding|protease binding			ovary(3)	3	all_hematologic(175;0.0537)	Breast(109;0.00526)|Lung NSC(97;0.00901)|all_lung(97;0.018)|Medulloblastoma(222;0.0523)|all_neural(223;0.186)		OV - Ovarian serous cystadenocarcinoma(99;0.0167)|Lung(977;0.171)|LUSC - Lung squamous cell carcinoma(976;0.184)		TTCGCAGAACCGTCTGGCCCT	0.552													7	88					0	0	0.006214	0	0	
PRDM10	56980	broad.mit.edu	37	11	129817095	129817095	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:129817095C>T	uc001qfm.2	-	5	697	c.465G>A	c.(463-465)ACG>ACA	p.T155T	PRDM10_uc001qfj.2_Silent_p.T69T|PRDM10_uc001qfk.2_Silent_p.T69T|PRDM10_uc001qfl.2_Silent_p.T69T|PRDM10_uc010sbx.1_Silent_p.T69T|PRDM10_uc001qfn.2_Silent_p.T155T|PRDM10_uc009zct.1_Silent_p.T187T	NM_020228	NP_064613	Q9NQV6	PRD10_HUMAN	PR domain containing 10 isoform 1	155					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1	all_hematologic(175;0.0537)	Breast(109;0.000496)|Lung NSC(97;0.000693)|all_lung(97;0.00151)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0174)|Lung(977;0.176)|LUSC - Lung squamous cell carcinoma(976;0.185)		CATCCAGATCCGTGTCCTCAC	0.597													5	38					0	0	0.001168	0	0	
ZBTB44	29068	broad.mit.edu	37	11	130108387	130108387	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:130108387G>A	uc001qga.2	-	4	1613	c.1219C>T	c.(1219-1221)CGA>TGA	p.R407*	ZBTB44_uc001qgb.3_Nonsense_Mutation_p.R407*|ZBTB44_uc001qfx.2_RNA|ZBTB44_uc001qfz.2_Nonsense_Mutation_p.R407*	NM_014155	NP_054874	Q8NCP5	ZBT44_HUMAN	zinc finger and BTB domain containing 44	407	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0192)|Lung(977;0.235)		CGGGTGAATCGCACCCCGCAG	0.493													5	13					0	0	0.000602	0	0	
ADAMTS15	170689	broad.mit.edu	37	11	130341117	130341117	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:130341117G>A	uc010scd.1	+	7	1917	c.1917G>A	c.(1915-1917)ACG>ACA	p.T639T		NM_139055	NP_620686	Q8TE58	ATS15_HUMAN	a disintegrin-like and metalloprotease	639	Cys-rich.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(2)|pancreas(1)|lung(1)|skin(1)	5	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0631)|Lung(977;0.215)		TGGACGGCACGCTGTGCTCTC	0.577													11	33					0	0	0.001368	0	0	
IGSF9B	22997	broad.mit.edu	37	11	133791085	133791085	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:133791085C>T	uc001qgx.3	-	18	2766	c.2535G>A	c.(2533-2535)ACG>ACA	p.T845T		NM_014987	NP_055802	Q9UPX0	TUTLB_HUMAN	immunoglobulin superfamily, member 9B	845	Cytoplasmic (Potential).					integral to membrane|plasma membrane					0	all_hematologic(175;0.127)	all_cancers(12;1.58e-21)|all_epithelial(12;5.17e-16)|all_lung(97;1.6e-05)|Lung NSC(97;3.86e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;7.19e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|all cancers(11;1.23e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00328)|Lung(977;0.221)		GCTCGATGGGCGTGGTGGCCT	0.642													4	22					0	0	0.001168	0	0	
IGSF9B	22997	broad.mit.edu	37	11	133794728	133794728	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:133794728G>A	uc001qgx.3	-	15	2337	c.2106C>T	c.(2104-2106)GGC>GGT	p.G702G	IGSF9B_uc001qgy.1_Silent_p.G544G	NM_014987	NP_055802	Q9UPX0	TUTLB_HUMAN	immunoglobulin superfamily, member 9B	702	Fibronectin type-III 2.|Extracellular (Potential).					integral to membrane|plasma membrane					0	all_hematologic(175;0.127)	all_cancers(12;1.58e-21)|all_epithelial(12;5.17e-16)|all_lung(97;1.6e-05)|Lung NSC(97;3.86e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;7.19e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|all cancers(11;1.23e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00328)|Lung(977;0.221)		TGCTGGAGACGCCGGCGATGT	0.562													10	65					0	0	0.004990	0	0	
GLB1L2	89944	broad.mit.edu	37	11	134240273	134240273	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:134240273G>A	uc001qhp.2	+	12	1383	c.1195G>A	c.(1195-1197)GCC>ACC	p.A399T	GLB1L2_uc009zdg.1_RNA	NM_138342	NP_612351	Q8IW92	GLBL2_HUMAN	galactosidase, beta 1-like 2 precursor	399					carbohydrate metabolic process	extracellular region	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|pancreas(1)|skin(1)	3	all_hematologic(175;0.127)	all_cancers(12;2.85e-18)|all_epithelial(12;1.21e-12)|all_lung(97;0.000276)|Lung NSC(97;0.000518)|Breast(109;0.00122)|Medulloblastoma(222;0.0399)|all_neural(223;0.0412)|Esophageal squamous(93;0.0844)		Epithelial(10;1.37e-11)|all cancers(11;2.2e-10)|BRCA - Breast invasive adenocarcinoma(10;3.09e-10)|OV - Ovarian serous cystadenocarcinoma(99;0.000885)|Lung(977;0.223)		TCTGTGGGACGCCCTCAAGTA	0.612													23	67					0	0	0.005443	0	0	
GLB1L2	89944	broad.mit.edu	37	11	134244527	134244527	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:134244527G>A	uc001qhp.2	+	18	1927	c.1739G>A	c.(1738-1740)GGC>GAC	p.G580D	GLB1L2_uc009zdg.1_RNA	NM_138342	NP_612351	Q8IW92	GLBL2_HUMAN	galactosidase, beta 1-like 2 precursor	580					carbohydrate metabolic process	extracellular region	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|pancreas(1)|skin(1)	3	all_hematologic(175;0.127)	all_cancers(12;2.85e-18)|all_epithelial(12;1.21e-12)|all_lung(97;0.000276)|Lung NSC(97;0.000518)|Breast(109;0.00122)|Medulloblastoma(222;0.0399)|all_neural(223;0.0412)|Esophageal squamous(93;0.0844)		Epithelial(10;1.37e-11)|all cancers(11;2.2e-10)|BRCA - Breast invasive adenocarcinoma(10;3.09e-10)|OV - Ovarian serous cystadenocarcinoma(99;0.000885)|Lung(977;0.223)		TTCATCAATGGCCAGAACCTT	0.547													6	117					0	0	0.004482	0	0	
GLB1L2	89944	broad.mit.edu	37	11	134244570	134244570	+	Silent	SNP	G	A	A	rs145307661		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:134244570G>A	uc001qhp.2	+	18	1970	c.1782G>A	c.(1780-1782)ACG>ACA	p.T594T	GLB1L2_uc009zdg.1_RNA	NM_138342	NP_612351	Q8IW92	GLBL2_HUMAN	galactosidase, beta 1-like 2 precursor	594					carbohydrate metabolic process	extracellular region	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|pancreas(1)|skin(1)	3	all_hematologic(175;0.127)	all_cancers(12;2.85e-18)|all_epithelial(12;1.21e-12)|all_lung(97;0.000276)|Lung NSC(97;0.000518)|Breast(109;0.00122)|Medulloblastoma(222;0.0399)|all_neural(223;0.0412)|Esophageal squamous(93;0.0844)		Epithelial(10;1.37e-11)|all cancers(11;2.2e-10)|BRCA - Breast invasive adenocarcinoma(10;3.09e-10)|OV - Ovarian serous cystadenocarcinoma(99;0.000885)|Lung(977;0.223)		CCCAGAAGACGCTTTACCTCC	0.582													22	95					0	0	0.001882	0	0	
IQSEC3	440073	broad.mit.edu	37	12	266244	266244	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:266244G>A	uc001qhw.1	+	3	1304	c.1298G>A	c.(1297-1299)CGC>CAC	p.R433H	IQSEC3_uc001qhu.1_Missense_Mutation_p.R433H	NM_015232	NP_056047	Q9UPP2	IQEC3_HUMAN	IQ motif and Sec7 domain 3	736	SEC7.				regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			central_nervous_system(2)|large_intestine(1)|skin(1)	4	all_cancers(10;0.016)|all_lung(10;0.0222)|all_epithelial(11;0.0262)|Lung NSC(10;0.031)		OV - Ovarian serous cystadenocarcinoma(31;0.00456)	LUAD - Lung adenocarcinoma(1;0.172)|Lung(1;0.179)		GAGGCCCTGCGCAAGTTCCAG	0.637													4	7					0	0	0.009096	0	0	
KDM5A	5927	broad.mit.edu	37	12	416652	416652	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:416652G>A	uc001qif.1	-	23	4261	c.3898C>T	c.(3898-3900)CTC>TTC	p.L1300F	KDM5A_uc001qie.1_Missense_Mutation_p.L1300F	NM_001042603	NP_001036068	P29375	KDM5A_HUMAN	retinoblastoma binding protein 2 isoform 1	1300					chromatin modification|multicellular organismal development|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|ovary(1)	3						GCTTTTTGGAGTTCTGCACTG	0.413			T 	NUP98	AML								12	30					0	0	0.000978	0	0	
B4GALNT3	283358	broad.mit.edu	37	12	654106	654106	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:654106G>A	uc001qii.1	+	5	506	c.506G>A	c.(505-507)CGC>CAC	p.R169H	B4GALNT3_uc001qij.1_Missense_Mutation_p.R71H	NM_173593	NP_775864	Q6L9W6	B4GN3_HUMAN	beta	169	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N-acetylgalactosaminyltransferase activity			ovary(1)|skin(1)	2	all_cancers(10;0.0158)|all_epithelial(11;0.0274)|Ovarian(42;0.0512)|all_lung(10;0.154)|Lung NSC(10;0.215)		OV - Ovarian serous cystadenocarcinoma(31;0.00018)|BRCA - Breast invasive adenocarcinoma(9;0.0262)			TATGGCCTCCGCATCTTTGGC	0.527													27	38					0	0	0.009535	0	0	
B4GALNT3	283358	broad.mit.edu	37	12	657408	657408	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:657408C>T	uc001qii.1	+	9	798	c.798C>T	c.(796-798)AAC>AAT	p.N266N	B4GALNT3_uc001qij.1_Silent_p.N168N	NM_173593	NP_775864	Q6L9W6	B4GN3_HUMAN	beta	266	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N-acetylgalactosaminyltransferase activity			ovary(1)|skin(1)	2	all_cancers(10;0.0158)|all_epithelial(11;0.0274)|Ovarian(42;0.0512)|all_lung(10;0.154)|Lung NSC(10;0.215)		OV - Ovarian serous cystadenocarcinoma(31;0.00018)|BRCA - Breast invasive adenocarcinoma(9;0.0262)			GGCGACGGAACGACCCTGGAG	0.592													15	53					0	0	0.004990	0	0	
WNK1	65125	broad.mit.edu	37	12	966394	966394	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:966394T>C	uc001qio.3	+	5	1886	c.1379T>C	c.(1378-1380)ATA>ACA	p.I460T	WNK1_uc001qip.3_Missense_Mutation_p.I460T	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	460	Protein kinase.				intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			GAAGGATGCATACGACAAAAC	0.353													21	53					0	0	0.002780	0	0	
ERC1	23085	broad.mit.edu	37	12	1137114	1137114	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:1137114C>T	uc001qjb.2	+	2	286	c.45C>T	c.(43-45)AGC>AGT	p.S15S	ERC1_uc001qiz.2_RNA|ERC1_uc001qjc.2_Silent_p.S15S|ERC1_uc001qja.2_RNA|ERC1_uc001qjd.2_RNA|ERC1_uc001qjf.2_Silent_p.S15S	NM_178040	NP_829884	Q8IUD2	RB6I2_HUMAN	RAB6-interacting protein 2 isoform epsilon	15					I-kappaB phosphorylation|multicellular organismal development|positive regulation of anti-apoptosis|positive regulation of NF-kappaB transcription factor activity|protein transport	Golgi membrane|IkappaB kinase complex|presynaptic membrane	leucine zipper domain binding			ovary(2)|lung(2)|breast(1)	5	all_epithelial(11;0.0698)|Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00239)|BRCA - Breast invasive adenocarcinoma(9;0.0567)			AGCCGAGCAGCCAGAGCCCTG	0.557													29	51					0	0	0.002836	0	0	
ERC1	23085	broad.mit.edu	37	12	1137664	1137664	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:1137664G>T	uc001qjb.2	+	2	836	c.595G>T	c.(595-597)GCC>TCC	p.A199S	ERC1_uc001qiz.2_RNA|ERC1_uc001qjc.2_Missense_Mutation_p.A199S|ERC1_uc001qja.2_RNA|ERC1_uc001qjd.2_RNA|ERC1_uc001qjf.2_Missense_Mutation_p.A199S	NM_178040	NP_829884	Q8IUD2	RB6I2_HUMAN	RAB6-interacting protein 2 isoform epsilon	199	Potential.				I-kappaB phosphorylation|multicellular organismal development|positive regulation of anti-apoptosis|positive regulation of NF-kappaB transcription factor activity|protein transport	Golgi membrane|IkappaB kinase complex|presynaptic membrane	leucine zipper domain binding			ovary(2)|lung(2)|breast(1)	5	all_epithelial(11;0.0698)|Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00239)|BRCA - Breast invasive adenocarcinoma(9;0.0567)			GAAGGAACGAGCCCTGAGAAA	0.433													16	48					4.14922e-12	4.48789e-12	0.004007	1	0	
ERC1	23085	broad.mit.edu	37	12	1299205	1299205	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:1299205G>A	uc001qjb.2	+	12	2579	c.2338G>A	c.(2338-2340)GCT>ACT	p.A780T	ERC1_uc001qiz.2_RNA|ERC1_uc001qjc.2_Missense_Mutation_p.A752T|ERC1_uc001qja.2_RNA|ERC1_uc001qjd.2_RNA|ERC1_uc001qjf.2_Missense_Mutation_p.A780T|ERC1_uc010sdv.1_Missense_Mutation_p.A528T|ERC1_uc009zdp.2_Missense_Mutation_p.A420T|ERC1_uc001qje.2_RNA	NM_178040	NP_829884	Q8IUD2	RB6I2_HUMAN	RAB6-interacting protein 2 isoform epsilon	780	Potential.				I-kappaB phosphorylation|multicellular organismal development|positive regulation of anti-apoptosis|positive regulation of NF-kappaB transcription factor activity|protein transport	Golgi membrane|IkappaB kinase complex|presynaptic membrane	leucine zipper domain binding			ovary(2)|lung(2)|breast(1)	5	all_epithelial(11;0.0698)|Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00239)|BRCA - Breast invasive adenocarcinoma(9;0.0567)			TAAGAAGATAGCTGAGTTGGA	0.383													6	84					0	0	0.003080	0	0	
CACNA2D4	93589	broad.mit.edu	37	12	2024074	2024074	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:2024074G>A	uc001qjp.2	-	2	486	c.255C>T	c.(253-255)GGC>GGT	p.G85G	CACNA2D4_uc009zds.1_RNA|CACNA2D4_uc009zdt.1_Silent_p.G85G	NM_172364	NP_758952	Q7Z3S7	CA2D4_HUMAN	voltage-gated calcium channel alpha(2)delta-4	85	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			ovary(1)	1	Ovarian(42;0.107)	Myeloproliferative disorder(1001;0.206)	OV - Ovarian serous cystadenocarcinoma(31;0.00113)	Kidney(2;0.0205)|KIRC - Kidney renal clear cell carcinoma(2;0.0451)		ACAGGTCCCCGCCGAAGGTGT	0.418													7	55					0	0	0.008291	0	0	
CACNA1C	775	broad.mit.edu	37	12	2788716	2788716	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:2788716C>T	uc009zdu.1	+	44	5655	c.5342C>T	c.(5341-5343)GCG>GTG	p.A1781V	CACNA1C_uc009zdv.1_Missense_Mutation_p.A1730V|CACNA1C_uc001qkb.2_Missense_Mutation_p.A1733V|CACNA1C_uc001qkc.2_Missense_Mutation_p.A1752V|CACNA1C_uc001qke.2_Missense_Mutation_p.A1722V|CACNA1C_uc001qkf.2_Missense_Mutation_p.A1741V|CACNA1C_uc001qjz.2_Missense_Mutation_p.A1733V|CACNA1C_uc001qkd.2_Missense_Mutation_p.A1752V|CACNA1C_uc001qkg.2_Missense_Mutation_p.A1739V|CACNA1C_uc009zdw.1_Missense_Mutation_p.A1774V|CACNA1C_uc001qkh.2_Missense_Mutation_p.A1741V|CACNA1C_uc001qkl.2_Missense_Mutation_p.A1781V|CACNA1C_uc001qkn.2_Missense_Mutation_p.A1733V|CACNA1C_uc001qko.2_Missense_Mutation_p.A1753V|CACNA1C_uc001qkp.2_Missense_Mutation_p.A1733V|CACNA1C_uc001qkr.2_Missense_Mutation_p.A1750V|CACNA1C_uc001qku.2_Missense_Mutation_p.A1733V|CACNA1C_uc001qkq.2_Missense_Mutation_p.A1761V|CACNA1C_uc001qks.2_Missense_Mutation_p.A1733V|CACNA1C_uc001qkt.2_Missense_Mutation_p.A1752V|CACNA1C_uc001qki.1_Missense_Mutation_p.A1469V|CACNA1C_uc001qkj.1_Missense_Mutation_p.A1469V|CACNA1C_uc001qkk.1_Missense_Mutation_p.A1469V|CACNA1C_uc001qkm.1_Missense_Mutation_p.A1458V|CACNA1C_uc010sea.1_Missense_Mutation_p.A424V|uc001qkx.1_Intron|CACNA1C_uc001qky.1_Missense_Mutation_p.A51V	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	1781	Cytoplasmic (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	ATCAACAAGGCGGGCAGCAGC	0.652													3	8					0	0	0.009096	0	0	
FKBP4	2288	broad.mit.edu	37	12	2907922	2907922	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:2907922C>T	uc001qkz.2	+	4	642	c.444C>T	c.(442-444)GGC>GGT	p.G148G		NM_002014	NP_002005	Q02790	FKBP4_HUMAN	FK506 binding protein 52	148					negative regulation of microtubule polymerization or depolymerization|negative regulation of neuron projection development|protein folding	axonal growth cone|cytosol|membrane|microtubule|nucleus	FK506 binding|heat shock protein binding|peptidyl-prolyl cis-trans isomerase activity|protein binding, bridging				0			OV - Ovarian serous cystadenocarcinoma(31;0.00105)		Dimethyl sulfoxide(DB01093)	AGGAAGATGGCGGAATCATTC	0.433													27	95					0	0	0.006320	0	0	
GALNT8	26290	broad.mit.edu	37	12	4835984	4835984	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:4835984G>A	uc001qne.1	+	2	590	c.498G>A	c.(496-498)ACG>ACA	p.T166T		NM_017417	NP_059113	Q9NY28	GALT8_HUMAN	polypeptide N-acetylgalactosaminyltransferase 8	166	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(1)|skin(1)	4						TCCCCGACACGCGAGACTACA	0.572													11	49					0	0	0.004007	0	0	
KCNA6	3742	broad.mit.edu	37	12	4919925	4919925	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:4919925C>T	uc001qng.2	+	1	1584	c.718C>T	c.(718-720)CCT>TCT	p.P240S		NM_002235	NP_002226	P17658	KCNA6_HUMAN	potassium voltage-gated channel, shaker-related	240						voltage-gated potassium channel complex	voltage-gated potassium channel activity			skin(2)|ovary(1)	3						TGGCATCACCCCTGGGGAAAT	0.547										HNSCC(72;0.22)			5	64					0	0	0.001984	0	0	
KCNA6	3742	broad.mit.edu	37	12	4920535	4920535	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:4920535C>T	uc001qng.2	+	1	2194	c.1328C>T	c.(1327-1329)GCC>GTC	p.A443V		NM_002235	NP_002226	P17658	KCNA6_HUMAN	potassium voltage-gated channel, shaker-related	443	Helical; Name=Segment S6; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			skin(2)|ovary(1)	3						TCGCTGTGTGCCATCGCTGGG	0.602										HNSCC(72;0.22)			17	46					0	0	0.006122	0	0	
KCNA5	3741	broad.mit.edu	37	12	5154014	5154014	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:5154014G>A	uc001qni.2	+	1	930	c.701G>A	c.(700-702)CGC>CAC	p.R234H		NM_002234	NP_002225	P22460	KCNA5_HUMAN	potassium voltage-gated channel, shaker-related	234						Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(2)|breast(2)	4						GAGTTCCAGCGCCAGGTGTGG	0.602													5	47					0	0	0.001984	0	0	
VWF	7450	broad.mit.edu	37	12	6127784	6127784	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:6127784C>T	uc001qnn.1	-	28	5050	c.4800G>A	c.(4798-4800)GCG>GCA	p.A1600A	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	1600	VWFA 2.				blood coagulation, intrinsic pathway|cell-substrate adhesion|platelet activation|platelet degranulation|protein homooligomerization	endoplasmic reticulum|platelet alpha granule lumen|proteinaceous extracellular matrix|Weibel-Palade body	chaperone binding|collagen binding|glycoprotein binding|immunoglobulin binding|integrin binding|protease binding|protein homodimerization activity|protein N-terminus binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)	12					Antihemophilic Factor(DB00025)	CCAGGTTGGGCGCCTGCTCCC	0.463													10	28					0	0	0.006214	0	0	
CHD4	1108	broad.mit.edu	37	12	6711240	6711240	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:6711240G>A	uc001qpo.2	-	4	488	c.324C>T	c.(322-324)AGC>AGT	p.S108S	CHD4_uc001qpn.2_Silent_p.S101S|CHD4_uc001qpp.2_Silent_p.S105S	NM_001273	NP_001264	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	108					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|zinc ion binding			central_nervous_system(2)	2						GAGTATAGTCGCTGCCCTCAC	0.488													13	29					0	0	0.004990	0	0	
ENO2	2026	broad.mit.edu	37	12	7025874	7025874	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:7025874C>T	uc001qru.1	+	4	443	c.221C>T	c.(220-222)GCG>GTG	p.A74V	ENO2_uc009zfi.1_Missense_Mutation_p.A74V|ENO2_uc010sfq.1_Intron|ENO2_uc001qrv.1_Missense_Mutation_p.A74V	NM_001975	NP_001966	P09104	ENOG_HUMAN	enolase 2	74					gluconeogenesis|glycolysis	phosphopyruvate hydratase complex|plasma membrane	magnesium ion binding|phosphopyruvate hydratase activity				0						TCCACCATCGCGCCAGCCCTC	0.612													7	65					0	0	0.006214	0	0	
RBP5	83758	broad.mit.edu	37	12	7280857	7280857	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:7280857G>A	uc001qsq.2	-	2	326	c.231C>T	c.(229-231)AGC>AGT	p.S77S	CLSTN3_uc001qsr.2_5'Flank	NM_031491	NP_113679	P82980	RET5_HUMAN	retinol binding protein 5, cellular	77						cytoplasm	retinal binding|retinol binding|transporter activity			ovary(1)	1					Vitamin A(DB00162)	GTCCGTCCACGCTCCTGAGGT	0.557													15	36					0	0	0.004007	0	0	
CLSTN3	9746	broad.mit.edu	37	12	7288865	7288865	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:7288865G>A	uc001qsr.2	+	6	1084	c.806G>A	c.(805-807)CGC>CAC	p.R269H	CLSTN3_uc001qss.2_Missense_Mutation_p.R281H	NM_014718	NP_055533	Q9BQT9	CSTN3_HUMAN	calsyntenin 3 precursor	269	Extracellular (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			large_intestine(1)	1						CCTGGTATCCGCCTGGAGACC	0.557													7	60					0	0	0.003080	0	0	
CD163L1	283316	broad.mit.edu	37	12	7528533	7528533	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:7528533G>A	uc001qsy.2	-	10	2475	c.2449C>T	c.(2449-2451)CGC>TGC	p.R817C	CD163L1_uc010sge.1_Missense_Mutation_p.R827C	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	817	SRCR 8.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11						CAGACAGAGCGCCATGTGTCT	0.463													27	79					0	0	0.002096	0	0	
NANOG	79923	broad.mit.edu	37	12	7945545	7945545	+	Splice_Site	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:7945545G>T	uc009zfy.1	+	2	368	c.152_splice	c.e2-1	p.V51_splice		NM_024865	NP_079141	Q9H9S0	NANOG_HUMAN	Nanog homeobox						cell proliferation|embryo development|somatic stem cell maintenance	nucleolus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0				Kidney(36;0.0872)		GTTCCCAACAGTCTCTCCTCT	0.368													5	135					0.000602214	0.000627828	0.000602	1	0	
AICDA	57379	broad.mit.edu	37	12	8759609	8759609	+	Splice_Site	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:8759609C>T	uc001qur.2	-	2	88	c.9_splice	c.e2-1	p.S3_splice	AICDA_uc001qup.1_Splice_Site|AICDA_uc001quq.1_Splice_Site|AICDA_uc009zgd.1_Splice_Site	NM_020661	NP_065712	Q9GZX7	AICDA_HUMAN	activation-induced cytidine deaminase						B cell differentiation|DNA demethylation|mRNA processing|negative regulation of methylation-dependent chromatin silencing	cytoplasm	cytidine deaminase activity|protein binding|zinc ion binding			ovary(1)|pancreas(1)	2	Lung SC(5;0.184)					CATCAAGAGGCTGTGGGTGAG	0.463									Immune_Deficiency_with_Hyper-IgM				5	19					0	0	0.000602	0	0	
RIMKLB	57494	broad.mit.edu	37	12	8866509	8866509	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:8866509G>A	uc001quu.2	+	2	298	c.47G>A	c.(46-48)CGC>CAC	p.R16H	RIMKLB_uc009zgf.1_RNA|RIMKLB_uc001qux.2_Missense_Mutation_p.R16H|RIMKLB_uc010sgl.1_Missense_Mutation_p.R16H|RIMKLB_uc001quw.2_Missense_Mutation_p.R16H	NM_020734	NP_065785	Q9ULI2	RIMKB_HUMAN	ribosomal modification protein rimK-like family	16					protein modification process	cytoplasm	acid-amino acid ligase activity|ATP binding|metal ion binding				0						ACAGATCGTCGCATCAGGGAA	0.458													7	53					0	0	0.001984	0	0	
A2ML1	144568	broad.mit.edu	37	12	9000230	9000230	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:9000230C>T	uc001quz.3	+	15	1867	c.1769C>T	c.(1768-1770)GCG>GTG	p.A590V	A2ML1_uc001qva.1_Missense_Mutation_p.A170V|A2ML1_uc010sgm.1_Missense_Mutation_p.A90V	NM_144670	NP_653271	A8K2U0	A2ML1_HUMAN	alpha-2-macroglobulin-like 1 precursor	434						extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3						TCCCTGTGTGCGCTCCGGGCG	0.607													21	56					0	0	0.002780	0	0	
A2M	2	broad.mit.edu	37	12	9229462	9229462	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:9229462C>T	uc001qvk.1	-	28	3535	c.3422G>A	c.(3421-3423)GGC>GAC	p.G1141D	A2M_uc001qvj.1_Missense_Mutation_p.G183D|A2M_uc009zgk.1_Missense_Mutation_p.G991D	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	1141					blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	TACATGGCTGCCATGGTCCCC	0.512													17	78					0	0	0.010504	0	0	
A2M	2	broad.mit.edu	37	12	9268379	9268379	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:9268379C>T	uc001qvk.1	-	1	180	c.67G>A	c.(67-69)GCC>ACC	p.A23T	A2M_uc009zgk.1_5'UTR	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	23					blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	GAGACTGAGGCGTCTGTGGGC	0.458													16	38					0	0	0.008871	0	0	
CLEC1B	51266	broad.mit.edu	37	12	10147759	10147759	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:10147759G>A	uc001qwu.2	-	5	725	c.525C>T	c.(523-525)GGC>GGT	p.G175G	CLEC1B_uc009zhd.2_Silent_p.G142G	NM_016509	NP_057593	Q9P126	CLC1B_HUMAN	C-type lectin domain family 1, member B isoform	175	C-type lectin.|Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response	integral to plasma membrane	protein binding|sugar binding|transmembrane receptor activity				0						AGATAACCGAGCCATCCTCCC	0.433													60	159					0	0	0.003610	0	0	
CLEC12B	387837	broad.mit.edu	37	12	10167889	10167889	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:10167889T>C	uc001qwz.2	+	4	576	c.448T>C	c.(448-450)TAC>CAC	p.Y150H	CLEC12B_uc001qwx.1_Missense_Mutation_p.Y150H|CLEC12B_uc001qwy.1_Missense_Mutation_p.Y47H|CLEC12B_uc009zhe.2_RNA	NM_001129998	NP_001123470	Q2HXU8	CL12B_HUMAN	C-type lectin domain family 12, member B isoform	150	Extracellular (Potential).|C-type lectin.					integral to membrane|plasma membrane	receptor activity|sugar binding				0						GTGGCAATGGTACCAAAATAG	0.388													7	149					0	0	0.001984	0	0	
CLEC9A	283420	broad.mit.edu	37	12	10206943	10206943	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:10206943C>T	uc001qxa.2	+	5	778	c.165C>T	c.(163-165)GGC>GGT	p.G55G		NM_207345	NP_997228	Q6UXN8	CLC9A_HUMAN	C-type lectin domain family 9, member A	55	Helical; Signal-anchor for type II membrane protein; (Potential).				positive regulation of cytokine secretion|receptor-mediated endocytosis	cell surface|integral to membrane	receptor activity|sugar binding			ovary(1)	1						TTTTCTTGGGCGTCAAGTGTA	0.303													5	33					0	0	0.000602	0	0	
GABARAPL1	23710	broad.mit.edu	37	12	10370695	10370695	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:10370695C>T	uc001qxs.2	+	2	364	c.124C>T	c.(124-126)CCT>TCT	p.P42S	GABARAPL1_uc010shb.1_Missense_Mutation_p.P42S|GABARAPL1_uc001qxt.2_RNA|GABARAPL1_uc001qxu.2_RNA	NM_031412	NP_113600	Q9H0R8	GBRL1_HUMAN	GABA(A) receptor-associated protein like 1	42	Interaction with GABRG2 (By similarity).					autophagic vacuole|endoplasmic reticulum|Golgi apparatus|membrane|microtubule	beta-tubulin binding|GABA receptor binding				0						AGCCAGGGTGCCTGATCTGGA	0.473													14	35					0	0	0.006122	0	0	
CSDA	8531	broad.mit.edu	37	12	10862618	10862618	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:10862618C>T	uc001qyt.2	-	6	912	c.669G>A	c.(667-669)CTG>CTA	p.L223L	CSDA_uc001qyu.2_Intron	NM_003651	NP_003642	P16989	DBPA_HUMAN	cold shock domain protein A isoform a	223					negative regulation of transcription from RNA polymerase II promoter|response to cold	cytoplasm|nucleus	double-stranded DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)|lung(1)|large_intestine(1)	4	Glioma(1;0.155)					GGGGGCGGCGCAGCTGATTCC	0.647													4	16					0	0	0.009096	0	0	
CSDA	8531	broad.mit.edu	37	12	10862684	10862684	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:10862684G>A	uc001qyt.2	-	6	846	c.603C>T	c.(601-603)AGC>AGT	p.S201S	CSDA_uc001qyu.2_Intron	NM_003651	NP_003642	P16989	DBPA_HUMAN	cold shock domain protein A isoform a	201					negative regulation of transcription from RNA polymerase II promoter|response to cold	cytoplasm|nucleus	double-stranded DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)|lung(1)|large_intestine(1)	4	Glioma(1;0.155)					CACTGCTGCCGCTCCCTTCCT	0.557													5	13					0	0	0.004482	0	0	
TAS2R30	259293	broad.mit.edu	37	12	11286180	11286180	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:11286180T>C	uc009zhs.1	-	1	664	c.664A>G	c.(664-666)AAG>GAG	p.K222E	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron|PRH1_uc001qzj.2_Intron	NM_001097643	NP_001091112			type 2 taste receptor member 30												0						ATGTGGACCTTGGTGCTGGGA	0.418													10	295					0	0	0.000978	0	0	
LRP6	4040	broad.mit.edu	37	12	12334196	12334196	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:12334196C>T	uc001rah.3	-	6	1296	c.1154G>A	c.(1153-1155)CGC>CAC	p.R385H	BCL2L14_uc001raf.1_Intron|LRP6_uc010shl.1_Missense_Mutation_p.R385H	NM_002336	NP_002327	O75581	LRP6_HUMAN	low density lipoprotein receptor-related protein	385	LDL-receptor class B 6.|Extracellular (Potential).|Beta-propeller 2.				cellular response to cholesterol|negative regulation of protein phosphorylation|negative regulation of protein serine/threonine kinase activity|negative regulation of smooth muscle cell apoptosis|neural crest formation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell cycle|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway involved in dorsal/ventral axis specification|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	cell surface|cytoplasmic vesicle|endoplasmic reticulum|integral to membrane|plasma membrane	coreceptor activity|frizzled binding|kinase inhibitor activity|low-density lipoprotein receptor activity|protein homodimerization activity|toxin transporter activity|Wnt-protein binding			lung(4)|skin(4)|ovary(2)|kidney(1)|central_nervous_system(1)	12		Prostate(47;0.0865)				AAATGAACGGCGTATGGCCCT	0.458													8	110					0	0	0.008291	0	0	
DUSP16	80824	broad.mit.edu	37	12	12630760	12630760	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:12630760C>T	uc001rao.1	-	7	1637	c.1005G>A	c.(1003-1005)ACG>ACA	p.T335T	DUSP16_uc001ram.1_5'Flank|DUSP16_uc001ran.1_Silent_p.T187T	NM_030640	NP_085143	Q9BY84	DUS16_HUMAN	dual specificity phosphatase 16	335					inactivation of MAPK activity|MAPK export from nucleus|MAPK phosphatase export from nucleus, leptomycin B sensitive	cytoplasmic membrane-bounded vesicle|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity				0		Prostate(47;0.0687)		BRCA - Breast invasive adenocarcinoma(232;0.0203)		GACTGAGGGGCGTCTCGCTTT	0.517													20	40					0	0	0.002299	0	0	
GSG1	83445	broad.mit.edu	37	12	13243486	13243486	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:13243486G>T	uc001rbn.2	-	2	488	c.315C>A	c.(313-315)AGC>AGA	p.S105R	GSG1_uc001rbj.2_Missense_Mutation_p.S92R|GSG1_uc001rbk.2_Missense_Mutation_p.S92R|GSG1_uc001rbl.2_Missense_Mutation_p.S92R|GSG1_uc001rbm.2_Missense_Mutation_p.S92R|GSG1_uc001rbo.2_Missense_Mutation_p.S105R|GSG1_uc001rbp.2_Missense_Mutation_p.S105R|GSG1_uc001rbq.1_Missense_Mutation_p.S105R	NM_001080555	NP_001074024	Q2KHT4	GSG1_HUMAN	germ cell associated 1 isoform 4	92						endoplasmic reticulum membrane|integral to membrane					0		Prostate(47;0.183)		BRCA - Breast invasive adenocarcinoma(232;0.15)		CACTCCGGAAGCTCCGGAAGG	0.552													22	45					2.21704e-12	2.40049e-12	0.002780	1	0	
GRIN2B	2904	broad.mit.edu	37	12	13717182	13717182	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:13717182G>A	uc001rbt.2	-	13	3169	c.2990C>T	c.(2989-2991)GCC>GTC	p.A997V		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	997	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	GATGGAGCTGGCACTGCCAAT	0.582													10	25					0	0	0.001855	0	0	
C12orf60	144608	broad.mit.edu	37	12	14976105	14976105	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:14976105A>G	uc001rcj.3	+	2	440	c.236A>G	c.(235-237)GAC>GGC	p.D79G		NM_175874	NP_787070	Q5U649	CL060_HUMAN	hypothetical protein LOC144608	79										ovary(1)|central_nervous_system(1)	2						GCAAGACATGACAAAATTCAA	0.373													28	90					0	0	0.007291	0	0	
C12orf60	144608	broad.mit.edu	37	12	14976279	14976279	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:14976279A>G	uc001rcj.3	+	2	614	c.410A>G	c.(409-411)GAA>GGA	p.E137G		NM_175874	NP_787070	Q5U649	CL060_HUMAN	hypothetical protein LOC144608	137										ovary(1)|central_nervous_system(1)	2						GGGAGTCTGGAATCTTCTCTT	0.413													6	96					0	0	0.001168	0	0	
EPS8	2059	broad.mit.edu	37	12	15819381	15819381	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:15819381C>T	uc009zif.2	-	7	686	c.592G>A	c.(592-594)GCC>ACC	p.A198T	EPS8_uc001rdb.2_Missense_Mutation_p.A198T|EPS8_uc009zig.2_5'UTR	NM_004447	NP_004438	Q12929	EPS8_HUMAN	epidermal growth factor receptor pathway	198					cell proliferation|epidermal growth factor receptor signaling pathway		SH3/SH2 adaptor activity			ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		all_epithelial(100;1.87e-05)|Breast(259;0.000286)|Hepatocellular(102;0.244)		BRCA - Breast invasive adenocarcinoma(232;4.29e-05)|GBM - Glioblastoma multiforme(207;0.0264)		TACCTCAGGGCGTCGGGCCGC	0.393													7	39					0	0	0.001984	0	0	
LMO3	55885	broad.mit.edu	37	12	16704207	16704207	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:16704207C>T	uc001rdk.1	-	4	827	c.387G>A	c.(385-387)ACG>ACA	p.T129T	LMO3_uc001rdj.1_Silent_p.T140T|LMO3_uc010shy.1_Silent_p.T147T|LMO3_uc001rdl.1_Silent_p.T129T|LMO3_uc009zii.1_RNA|LMO3_uc010shz.1_Silent_p.T151T|LMO3_uc001rdm.1_Silent_p.T129T|LMO3_uc001rdo.1_RNA|LMO3_uc001rdp.1_RNA|LMO3_uc001rdn.1_Silent_p.T129T|LMO3_uc009zij.1_RNA|LMO3_uc009zik.1_RNA	NM_018640	NP_061110	Q8TAP4	LMO3_HUMAN	LIM domain only 3	129	LIM zinc-binding 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent		zinc ion binding				0		Hepatocellular(102;0.244)				CCTCGTAGTCCGTCTGGCAAA	0.348													8	84					0	0	0.004482	0	0	
PIK3C2G	5288	broad.mit.edu	37	12	18491429	18491429	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:18491429C>T	uc001rdt.2	+	9	1458	c.1342C>T	c.(1342-1344)CAA>TAA	p.Q448*	PIK3C2G_uc010sia.1_RNA|PIK3C2G_uc010sib.1_Nonsense_Mutation_p.Q448*|PIK3C2G_uc010sic.1_Nonsense_Mutation_p.Q226*	NM_004570	NP_004561	O75747	P3C2G_HUMAN	phosphoinositide-3-kinase, class 2 gamma	448					cell communication|phosphatidylinositol-mediated signaling	membrane|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(8)|central_nervous_system(6)|breast(3)|stomach(2)|ovary(2)	21		Hepatocellular(102;0.194)				GGAAACCAAACAAATTACAGA	0.308													31	83					0	0	0.004878	0	0	
PLEKHA5	54477	broad.mit.edu	37	12	19427794	19427794	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:19427794G>A	uc001reb.2	+	10	1258	c.1172G>A	c.(1171-1173)CGC>CAC	p.R391H	PLEKHA5_uc010sie.1_Missense_Mutation_p.R397H|PLEKHA5_uc001rea.2_Missense_Mutation_p.R391H|PLEKHA5_uc009zin.2_Missense_Mutation_p.R149H|PLEKHA5_uc010sif.1_Missense_Mutation_p.R283H|PLEKHA5_uc010sig.1_Missense_Mutation_p.R283H|PLEKHA5_uc010sih.1_Missense_Mutation_p.R283H|PLEKHA5_uc001rec.1_Missense_Mutation_p.R79H	NM_019012	NP_061885	Q9HAU0	PKHA5_HUMAN	pleckstrin homology domain containing, family A	391							1-phosphatidylinositol binding|protein binding			ovary(1)|kidney(1)|skin(1)	3	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.00804)					GGTGGAAATCGCCCCAATACA	0.473													6	65					0	0	0.001168	0	0	
IAPP	3375	broad.mit.edu	37	12	21531352	21531352	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:21531352C>A	uc001rev.2	+	3	414	c.262C>A	c.(262-264)CCC>ACC	p.P88T	SLCO1A2_uc001res.2_Intron|SLCO1A2_uc010siq.1_Intron	NM_000415	NP_000406	P10997	IAPP_HUMAN	islet amyloid polypeptide precursor	88					apoptosis|cell-cell signaling|endocrine pancreas development|signal transduction	extracellular region|soluble fraction	hormone activity				0					Perindopril(DB00790)	GAATTACTTGCCCCTTTAGAG	0.383													22	51					3.5997e-14	3.91216e-14	0.002299	1	0	
PYROXD1	79912	broad.mit.edu	37	12	21614991	21614991	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:21614991C>T	uc001rew.2	+	9	1057	c.930C>T	c.(928-930)TGC>TGT	p.C310C	PYROXD1_uc009ziq.2_Silent_p.C51C|PYROXD1_uc009zir.2_Silent_p.C16C	NM_024854	NP_079130	Q8WU10	PYRD1_HUMAN	pyridine nucleotide-disulphide oxidoreductase	310							oxidoreductase activity			ovary(1)	1						TATATGGCTGCGATTTCATTG	0.343													8	46					0	0	0.004482	0	0	
RECQL	5965	broad.mit.edu	37	12	21630862	21630862	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:21630862C>T	uc001rex.2	-	8	1090	c.742G>A	c.(742-744)GCA>ACA	p.A248T	RECQL_uc001rey.2_Missense_Mutation_p.A248T	NM_032941	NP_116559	P46063	RECQ1_HUMAN	RecQ protein-like	248	Helicase ATP-binding.				DNA recombination|DNA repair|DNA replication	nucleus	ATP binding|ATP-dependent 3'-5' DNA helicase activity|DNA strand annealing activity|protein binding			ovary(1)|lung(1)	2						ATTAGTGATGCGTTAGGGAAC	0.358								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					5	85					0	0	0.001168	0	0	
ABCC9	10060	broad.mit.edu	37	12	22063104	22063104	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:22063104G>A	uc001rfi.1	-	8	1327	c.1307C>T	c.(1306-1308)GCT>GTT	p.A436V	ABCC9_uc001rfh.2_Missense_Mutation_p.A436V|ABCC9_uc001rfj.1_Missense_Mutation_p.A436V	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	436	ABC transmembrane type-1 1.|Helical; Name=8; (Potential).				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	AACAGGCATAGCCCATAGATT	0.378													4	103					0	0	0.009096	0	0	
SOX5	6660	broad.mit.edu	37	12	23687401	23687401	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:23687401C>T	uc001rfw.2	-	15	2146	c.2044G>A	c.(2044-2046)GCC>ACC	p.A682T	SOX5_uc001rfx.2_Missense_Mutation_p.A669T|SOX5_uc001rfy.2_Missense_Mutation_p.A561T|SOX5_uc001rfv.2_Missense_Mutation_p.A296T|SOX5_uc010siv.1_Missense_Mutation_p.A669T	NM_006940	NP_008871	P35711	SOX5_HUMAN	SRY (sex determining region Y)-box 5 isoform a	682					transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6						CCAGCCATGGCGATGGCTCCA	0.552													5	15					0	0	0.001984	0	0	
SOX5	6660	broad.mit.edu	37	12	23689453	23689453	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:23689453C>T	uc001rfw.2	-	14	2024	c.1922G>A	c.(1921-1923)CGC>CAC	p.R641H	SOX5_uc001rfx.2_Missense_Mutation_p.R628H|SOX5_uc001rfy.2_Missense_Mutation_p.R520H|SOX5_uc001rfv.2_Missense_Mutation_p.R255H|SOX5_uc010siv.1_Missense_Mutation_p.R628H|SOX5_uc010siw.1_RNA	NM_006940	NP_008871	P35711	SOX5_HUMAN	SRY (sex determining region Y)-box 5 isoform a	641					transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6						TTCACCAATGCGCAGCTTTTT	0.517													8	52					0	0	0.004482	0	0	
CASC1	55259	broad.mit.edu	37	12	25267782	25267782	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:25267782G>A	uc001rgl.2	-	12	1483	c.1401C>T	c.(1399-1401)GGC>GGT	p.G467G	CASC1_uc001rgk.2_Silent_p.G473G|CASC1_uc001rgm.3_Silent_p.G531G|CASC1_uc001rgj.2_Silent_p.G427G|CASC1_uc010sje.1_Silent_p.G408G|CASC1_uc010sjf.1_Silent_p.G355G|CASC1_uc010sjg.1_3'UTR	NM_001082973	NP_001076442	Q6TDU7	CASC1_HUMAN	cancer susceptibility candidate 1 isoform b	467										ovary(2)	2	Acute lymphoblastic leukemia(6;0.00112)|all_hematologic(7;0.00152)|Melanoma(3;0.0301)|Colorectal(261;0.11)		OV - Ovarian serous cystadenocarcinoma(3;7.42e-20)|Epithelial(3;7.58e-16)|all cancers(3;1.07e-13)			CATTGCTGATGCCATCAGTTC	0.343													7	32					0	0	0.004482	0	0	
KRAS	3845	broad.mit.edu	37	12	25398284	25398284	+	Missense_Mutation	SNP	C	T	T	rs121913529		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:25398284C>T	uc001rgp.1	-	2	216	c.35G>A	c.(34-36)GGT>GAT	p.G12D	KRAS_uc001rgq.1_Missense_Mutation_p.G12D|KRAS_uc001rgr.2_RNA	NM_033360	NP_203524	P01116	RASK_HUMAN	c-K-ras2 protein isoform a precursor	12	GTP.		G -> D (in pancreatic carcinoma, GASC and lung carcinoma; somatic mutation).|G -> R (in lung cancer and bladder cancer; somatic mutation).|G -> S (in lung carcinoma and GASC; somatic mutation).|G -> A (in a colorectal cancer sample; somatic mutation).|G -> C (in lung carcinoma; somatic mutation).|G -> V (in lung carcinoma, pancreatic carcinoma, colon cancer and GASC; somatic mutation).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding	p.G12D(7175)|p.G12V(4780)|p.G12C(2482)|p.G12A(1180)|p.G12S(1119)|p.G12R(691)|p.G12?(50)|p.G12F(34)|p.G12N(6)|p.G12G(6)|p.G12L(5)|p.G12I(4)|p.G12_G13insG(4)|p.G12E(3)|p.G12W(3)|p.A11_G12insGA(2)|p.G12Y(2)|p.G12fs*3(1)		large_intestine(12391)|pancreas(3285)|lung(2847)|biliary_tract(521)|ovary(443)|endometrium(339)|haematopoietic_and_lymphoid_tissue(318)|stomach(203)|thyroid(149)|prostate(85)|soft_tissue(77)|small_intestine(62)|upper_aerodigestive_tract(59)|cervix(49)|urinary_tract(48)|skin(38)|liver(31)|breast(28)|testis(17)|oesophagus(15)|central_nervous_system(9)|peritoneum(6)|salivary_gland(6)|kidney(5)|gastrointestinal_tract_(site_indeterminate)(5)|thymus(5)|eye(4)|autonomic_ganglia(2)|bone(2)|genital_tract(1)|penis(1)|adrenal_gland(1)	21052	all_cancers(2;1e-35)|all_epithelial(2;1.97e-38)|all_lung(3;2.1e-23)|Lung NSC(3;1.16e-22)|Acute lymphoblastic leukemia(6;0.00231)|all_hematologic(7;0.00259)|Melanoma(3;0.0301)|Colorectal(261;0.11)|Ovarian(17;0.12)		OV - Ovarian serous cystadenocarcinoma(3;1.23e-21)|Epithelial(3;1.31e-20)|all cancers(3;5.45e-18)|STAD - Stomach adenocarcinoma(2;2.68e-05)			GCCTACGCCACCAGCTCCAAC	0.348	G12D(HPAC_PANCREAS)|G12V(SW403_LARGE_INTESTINE)|G12D(HPAFII_PANCREAS)|G12D(PANC0403_PANCREAS)|G12D(KOPN8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12A(KMS28BM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(NCIH441_LUNG)|G12D(SU8686_PANCREAS)|G12D(SUIT2_PANCREAS)|G12D(PK1_PANCREAS)|G12V(KP3_PANCREAS)|G12D(PANC0813_PANCREAS)|G12A(SW1116_LARGE_INTESTINE)|G12D(LS180_LARGE_INTESTINE)|G12V(NCIH727_LUNG)|G12V(PATU8988S_PANCREAS)|G12V(CAPAN2_PANCREAS)|G12D(KP4_PANCREAS)|G12D(LS513_LARGE_INTESTINE)|G12D(SNUC2A_LARGE_INTESTINE)|G12V(SW480_LARGE_INTESTINE)|G12V(COLO668_LUNG)|G12D(COLO678_LARGE_INTESTINE)|G12V(RERFLCAD2_LUNG)|G12D(PANC0203_PANCREAS)|G12V(CFPAC1_PANCREAS)|G12V(SW900_LUNG)|G12V(LCLC97TM1_LUNG)|G12V(SW620_LARGE_INTESTINE)|G12A(MM1S_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(SH10TC_STOMACH)|G12V(A498_KIDNEY)|G12D(PK59_PANCREAS)|G12D(HEC1A_ENDOMETRIUM)|G12D(PANC0504_PANCREAS)|G12V(SNGM_ENDOMETRIUM)|G12A(RERFLCAD1_LUNG)|G12A(KPNSI9S_AUTONOMIC_GANGLIA)|G12D(ASPC1_PANCREAS)|G12A(RPMI8226_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(RCM1_LARGE_INTESTINE)|G12V(CORL23_LUNG)|G12D(SW1990_PANCREAS)|G12D(HEYA8_OVARY)|G12A(NCIH1573_LUNG)|G12A(NCIH2009_LUNG)|G12V(HUPT4_PANCREAS)|G12D(KARPAS620_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12D(HEC50B_ENDOMETRIUM)|G12V(YAPC_PANCREAS)|G12V(NCIH2444_LUNG)|G12V(HCC56_LARGE_INTESTINE)|G12D(MCAS_OVARY)|G12V(DANG_PANCREAS)|G12V(SHP77_LUNG)|G12D(AGS_STOMACH)|G12D(SKLU1_LUNG)|G12V(QGP1_PANCREAS)|G12D(L33_PANCREAS)|G12V(PANC0327_PANCREAS)|G12D(PANC1_PANCREAS)|G12V(RKN_OVARY)|G12V(PATU8902_PANCREAS)	119	Mis		pancreatic|colorectal|lung|thyroid|AML|others				Cardiofaciocutaneous_syndrome|Noonan_syndrome	TSP Lung(1;<1E-08)|Multiple Myeloma(2;<1E-6)			5	17					0	0	0.001168	0	0	
IPO8	10526	broad.mit.edu	37	12	30837276	30837276	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:30837276A>G	uc001rjd.2	-	3	452	c.282T>C	c.(280-282)GAT>GAC	p.D94D		NM_006390	NP_006381	O15397	IPO8_HUMAN	importin 8	94	Importin N-terminal.				intracellular protein transport|signal transduction	cytoplasm|nucleus	protein transporter activity|Ran GTPase binding			skin(2)|central_nervous_system(1)	3	all_lung(12;6.66e-10)|Lung NSC(12;4.84e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0355)|Lung SC(12;0.0905)|Esophageal squamous(101;0.233)					CCACAATGTTATCACGTATTT	0.408													32	113					0	0	0.002445	0	0	
TSPAN11	441631	broad.mit.edu	37	12	31116918	31116918	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:31116918C>T	uc010sju.1	+	3	622	c.242C>T	c.(241-243)GCC>GTC	p.A81V	TSPAN11_uc001rjp.2_Missense_Mutation_p.A81V|TSPAN11_uc010sjv.1_Missense_Mutation_p.A71V	NM_001080509	NP_001073978	A1L157	TSN11_HUMAN	tetraspanin 11	81	Helical; (Potential).					integral to membrane					0	all_lung(12;3.11e-10)|Lung NSC(12;5.24e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Lung SC(12;0.0592)|Esophageal squamous(101;0.233)					GGCTTCGGTGCCATCCTCTGG	0.642													7	54					0	0	0.003080	0	0	
YARS2	51067	broad.mit.edu	37	12	32902887	32902887	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:32902887G>A	uc001rli.2	-	4	1324	c.1258C>T	c.(1258-1260)CCA>TCA	p.P420S		NM_001040436	NP_001035526	Q9Y2Z4	SYYM_HUMAN	tyrosyl-tRNA synthetase 2, mitochondrial	420					tyrosyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|protein binding|RNA binding|tyrosine-tRNA ligase activity				0	Lung NSC(5;2.43e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.239)				L-Tyrosine(DB00135)	GGACCATCTGGAATGGCATTT	0.318													4	103					0	0	0.001168	0	0	
KIF21A	55605	broad.mit.edu	37	12	39716590	39716590	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:39716590C>T	uc001rly.2	-	27	3697	c.3551G>A	c.(3550-3552)GGC>GAC	p.G1184D	KIF21A_uc001rlv.2_Missense_Mutation_p.G189D|KIF21A_uc001rlw.2_Missense_Mutation_p.G501D|KIF21A_uc001rlx.2_Missense_Mutation_p.G1171D|KIF21A_uc001rlz.2_Missense_Mutation_p.G1148D|KIF21A_uc010skl.1_Missense_Mutation_p.G1164D	NM_017641	NP_060111	Q7Z4S6	KI21A_HUMAN	kinesin family member 21A	1184					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(4)|pancreas(1)|lung(1)|skin(1)	7		Lung NSC(34;0.179)|all_lung(34;0.213)				TGTGAGAGGGCCAGGCAAGGA	0.507													39	107					0	0	0.006999	0	0	
KIF21A	55605	broad.mit.edu	37	12	39726490	39726490	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:39726490C>T	uc001rly.2	-	20	2905	c.2759G>A	c.(2758-2760)CGC>CAC	p.R920H	KIF21A_uc001rlv.2_5'Flank|KIF21A_uc001rlw.2_Missense_Mutation_p.R237H|KIF21A_uc001rlx.2_Missense_Mutation_p.R907H|KIF21A_uc001rlz.2_Missense_Mutation_p.R884H|KIF21A_uc010skl.1_Missense_Mutation_p.R907H	NM_017641	NP_060111	Q7Z4S6	KI21A_HUMAN	kinesin family member 21A	920					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(4)|pancreas(1)|lung(1)|skin(1)	7		Lung NSC(34;0.179)|all_lung(34;0.213)				CCACTTCATGCGAGCTGTCTT	0.423													8	43					0	0	0.003163	0	0	
CNTN1	1272	broad.mit.edu	37	12	41410609	41410609	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:41410609A>G	uc001rmm.1	+	19	2423	c.2310A>G	c.(2308-2310)AAA>AAG	p.K770K	CNTN1_uc001rmn.1_Silent_p.K759K	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	770	Fibronectin type-III 2.				axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)				ATGTCCATAAAGATGAAACCA	0.398													4	107					0	0	0.009096	0	0	
PDZRN4	29951	broad.mit.edu	37	12	41966851	41966851	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:41966851A>G	uc010skn.1	+	10	1741	c.1673A>G	c.(1672-1674)GAC>GGC	p.D558G	PDZRN4_uc001rmq.3_Missense_Mutation_p.D499G|PDZRN4_uc009zjz.2_Missense_Mutation_p.D497G|PDZRN4_uc001rmr.2_Missense_Mutation_p.D384G	NM_013377	NP_037509	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing RING finger 4 isoform 2	757							ubiquitin-protein ligase activity|zinc ion binding			lung(3)|skin(3)|ovary(2)|large_intestine(1)|kidney(1)|pancreas(1)	11	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)				CGTTCCCCTGACAGTTCCCTT	0.502													39	120					0	0	0.006230	0	0	
PDZRN4	29951	broad.mit.edu	37	12	41967300	41967300	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:41967300C>T	uc010skn.1	+	10	2190	c.2122C>T	c.(2122-2124)CGA>TGA	p.R708*	PDZRN4_uc001rmq.3_Nonsense_Mutation_p.R649*|PDZRN4_uc009zjz.2_Nonsense_Mutation_p.R647*|PDZRN4_uc001rmr.2_Nonsense_Mutation_p.R534*	NM_013377	NP_037509	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing RING finger 4 isoform 2	907							ubiquitin-protein ligase activity|zinc ion binding			lung(3)|skin(3)|ovary(2)|large_intestine(1)|kidney(1)|pancreas(1)	11	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)				GAGACCCGTGCGAGACCGAAT	0.517													9	125					0	0	0.006214	0	0	
PRICKLE1	144165	broad.mit.edu	37	12	42858589	42858589	+	Missense_Mutation	SNP	G	A	A	rs151332996	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:42858589G>A	uc010skv.1	-	7	1534	c.1247C>T	c.(1246-1248)ACG>ATG	p.T416M	PRICKLE1_uc001rnl.2_Missense_Mutation_p.T416M|PRICKLE1_uc010skw.1_Missense_Mutation_p.T416M|PRICKLE1_uc001rnm.2_Missense_Mutation_p.T416M	NM_001144881	NP_001138353	Q96MT3	PRIC1_HUMAN	prickle homolog 1	416					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein import into nucleus	cytosol|nuclear membrane	zinc ion binding			ovary(3)|skin(1)	4	all_cancers(12;4.25e-05)|Breast(8;0.176)			GBM - Glioblastoma multiforme(48;0.2)		GAGGAGCTGCGTCATATAATC	0.448													12	41					0	0	0.001368	0	0	
PRICKLE1	144165	broad.mit.edu	37	12	42858777	42858777	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:42858777C>T	uc010skv.1	-	7	1346	c.1059G>A	c.(1057-1059)TCG>TCA	p.S353S	PRICKLE1_uc001rnl.2_Silent_p.S353S|PRICKLE1_uc010skw.1_Silent_p.S353S|PRICKLE1_uc001rnm.2_Silent_p.S353S	NM_001144881	NP_001138353	Q96MT3	PRIC1_HUMAN	prickle homolog 1	353					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein import into nucleus	cytosol|nuclear membrane	zinc ion binding			ovary(3)|skin(1)	4	all_cancers(12;4.25e-05)|Breast(8;0.176)			GBM - Glioblastoma multiforme(48;0.2)		TCAGAGCAGGCGATAAGAGGA	0.498													42	78					0	0	0.003610	0	0	
PRICKLE1	144165	broad.mit.edu	37	12	42860064	42860064	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:42860064C>T	uc010skv.1	-	6	994	c.707G>A	c.(706-708)CGC>CAC	p.R236H	PRICKLE1_uc001rnl.2_Missense_Mutation_p.R236H|PRICKLE1_uc010skw.1_Missense_Mutation_p.R236H|PRICKLE1_uc001rnm.2_Missense_Mutation_p.R236H	NM_001144881	NP_001138353	Q96MT3	PRIC1_HUMAN	prickle homolog 1	236	LIM zinc-binding 2.				negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein import into nucleus	cytosol|nuclear membrane	zinc ion binding			ovary(3)|skin(1)	4	all_cancers(12;4.25e-05)|Breast(8;0.176)			GBM - Glioblastoma multiforme(48;0.2)		GCAGAAGGGGCGGCCGTCCTT	0.542													8	24					0	0	0.001855	0	0	
ADAMTS20	80070	broad.mit.edu	37	12	43826209	43826209	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:43826209G>A	uc010skx.1	-	21	2994	c.2994C>T	c.(2992-2994)GGC>GGT	p.G998G	ADAMTS20_uc001rno.1_Silent_p.G152G|ADAMTS20_uc001rnp.1_Silent_p.G152G	NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	998	TSP type-1 4.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		CAAGACGATGGCCAAAGTTAT	0.423													33	70					0	0	0.006230	0	0	
ADAMTS20	80070	broad.mit.edu	37	12	43944883	43944883	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:43944883G>A	uc010skx.1	-	2	282	c.282C>T	c.(280-282)ACC>ACT	p.T94T		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	94						proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		ATGCATCGGCGGTCAGGTTCA	0.677													3	15					0	0	0.004672	0	0	
PUS7L	83448	broad.mit.edu	37	12	44130389	44130389	+	Missense_Mutation	SNP	C	T	T	rs143825055		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:44130389C>T	uc001rnq.3	-	7	2009	c.1520G>A	c.(1519-1521)CGC>CAC	p.R507H	PUS7L_uc001rnr.3_Missense_Mutation_p.R507H|PUS7L_uc001rns.3_Missense_Mutation_p.R507H|PUS7L_uc009zkb.2_Missense_Mutation_p.R194H	NM_001098615	NP_001092085	Q9H0K6	PUS7L_HUMAN	pseudouridylate synthase 7 homolog (S.	507	TRUD.				pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			pancreas(1)	1	all_cancers(12;0.00027)	Lung NSC(34;0.114)|all_lung(34;0.24)		GBM - Glioblastoma multiforme(48;0.0402)		CATGCCAAAGCGGTGCAATGC	0.443													8	141					0	0	0.003080	0	0	
NELL2	4753	broad.mit.edu	37	12	44926433	44926433	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:44926433A>G	uc001rog.2	-	16	2330	c.1735T>C	c.(1735-1737)TAC>CAC	p.Y579H	NELL2_uc001rof.3_Missense_Mutation_p.Y578H|NELL2_uc001roh.2_Missense_Mutation_p.Y579H|NELL2_uc009zkd.2_Intron|NELL2_uc010skz.1_Missense_Mutation_p.Y629H|NELL2_uc010sla.1_Missense_Mutation_p.Y602H|NELL2_uc001roi.1_Missense_Mutation_p.Y579H|NELL2_uc010slb.1_Missense_Mutation_p.Y578H	NM_001145108	NP_001138580	Q99435	NELL2_HUMAN	NEL-like protein 2 isoform b precursor	579	EGF-like 5; calcium-binding (Potential).				cell adhesion	extracellular region	calcium ion binding|protein binding|structural molecule activity			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4	Lung SC(27;0.192)	Lung NSC(34;0.144)		GBM - Glioblastoma multiforme(48;0.092)		TCACAGTGGTACCATCCAGGC	0.413													7	108					0	0	0.003080	0	0	
ANO6	196527	broad.mit.edu	37	12	45822925	45822925	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:45822925C>T	uc001roo.2	+	20	2899	c.2564C>T	c.(2563-2565)GCA>GTA	p.A855V	ANO6_uc010sld.1_Intron|ANO6_uc010sle.1_Intron|ANO6_uc010slf.1_Missense_Mutation_p.A876V|ANO6_uc010slg.1_Missense_Mutation_p.A837V	NM_001025356	NP_001020527	Q4KMQ2	ANO6_HUMAN	anoctamin 6 isoform a	855	Cytoplasmic (Potential).				activation of blood coagulation via clotting cascade|phosphatidylserine exposure on blood platelet	chloride channel complex|plasma membrane	chloride channel activity			ovary(1)|kidney(1)	2						ATTTCATATGCAATTCCCGAT	0.388													6	69					0	0	0.003080	0	0	
ARID2	196528	broad.mit.edu	37	12	46246417	46246417	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:46246417G>A	uc001ros.1	+	15	4511	c.4511G>A	c.(4510-4512)CGG>CAG	p.R1504Q	ARID2_uc001ror.2_Missense_Mutation_p.R1504Q|ARID2_uc009zkg.1_Missense_Mutation_p.R960Q|ARID2_uc009zkh.1_Missense_Mutation_p.R1131Q|ARID2_uc001rou.1_Missense_Mutation_p.R838Q	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	1504					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		TCTGACGTTCGGTCTACAAAT	0.443													8	99					0	0	0.004482	0	0	
SLC38A1	81539	broad.mit.edu	37	12	46598370	46598370	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:46598370T>C	uc001rpa.2	-	10	908	c.650A>G	c.(649-651)TAT>TGT	p.Y217C	SLC38A1_uc001rpb.2_Missense_Mutation_p.Y217C|SLC38A1_uc001rpc.2_Missense_Mutation_p.Y217C|SLC38A1_uc001rpd.2_Missense_Mutation_p.Y217C|SLC38A1_uc001rpe.2_Missense_Mutation_p.Y217C|SLC38A1_uc010slh.1_Missense_Mutation_p.Y190C|SLC38A1_uc009zkj.1_Missense_Mutation_p.Y217C	NM_030674	NP_109599	Q9H2H9	S38A1_HUMAN	amino acid transporter system A1	217	Helical; (Potential).				cellular nitrogen compound metabolic process|neurotransmitter uptake	integral to membrane|plasma membrane	sodium:amino acid symporter activity			ovary(2)|skin(2)|central_nervous_system(1)	5	Lung SC(27;0.137)|Renal(347;0.236)		all cancers(1;0.00805)|OV - Ovarian serous cystadenocarcinoma(5;0.0106)|Epithelial(2;0.0344)			ATAGCCAAGATACCCtttaaa	0.264													4	101					0	0	0.009096	0	0	
SLC38A1	81539	broad.mit.edu	37	12	46602891	46602891	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:46602891T>C	uc001rpa.2	-	6	592	c.334A>G	c.(334-336)ACA>GCA	p.T112A	SLC38A1_uc001rpb.2_Missense_Mutation_p.T112A|SLC38A1_uc001rpc.2_Missense_Mutation_p.T112A|SLC38A1_uc001rpd.2_Missense_Mutation_p.T112A|SLC38A1_uc001rpe.2_Missense_Mutation_p.T112A|SLC38A1_uc010slh.1_Missense_Mutation_p.T85A|SLC38A1_uc009zkj.1_Missense_Mutation_p.T112A	NM_030674	NP_109599	Q9H2H9	S38A1_HUMAN	amino acid transporter system A1	112	Extracellular (Potential).				cellular nitrogen compound metabolic process|neurotransmitter uptake	integral to membrane|plasma membrane	sodium:amino acid symporter activity			ovary(2)|skin(2)|central_nervous_system(1)	5	Lung SC(27;0.137)|Renal(347;0.236)		all cancers(1;0.00805)|OV - Ovarian serous cystadenocarcinoma(5;0.0106)|Epithelial(2;0.0344)			GACAGCAATGTCACTGAAGTC	0.318													4	48					0	0	0.001984	0	0	
RPAP3	79657	broad.mit.edu	37	12	48073291	48073291	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:48073291C>T	uc001rpr.2	-	12	1388	c.1272G>A	c.(1270-1272)CCG>CCA	p.P424P	RPAP3_uc010slk.1_Silent_p.P265P|RPAP3_uc001rps.2_Intron	NM_024604	NP_078880	Q9H6T3	RPAP3_HUMAN	RNA polymerase II associated protein 3 isoform	424							binding			ovary(1)	1	Lung SC(27;0.192)					ATCCAGGATGCGGTGGATTAT	0.323													9	29					0	0	0.000978	0	0	
HDAC7	51564	broad.mit.edu	37	12	48188645	48188645	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:48188645G>A	uc010slo.1	-	12	1551	c.1356C>T	c.(1354-1356)GGC>GGT	p.G452G	HDAC7_uc009zku.2_5'Flank|HDAC7_uc001rqe.2_5'Flank|HDAC7_uc001rqj.3_Silent_p.G415G|HDAC7_uc001rqk.3_Silent_p.G435G	NM_015401	NP_056216	Q8WUI4	HDAC7_HUMAN	histone deacetylase 7 isoform a	413	Transcription repression 2 (By similarity).				negative regulation of interleukin-2 production|negative regulation of osteoblast differentiation|positive regulation of cell migration involved in sprouting angiogenesis|transcription, DNA-dependent	cytoplasm|histone deacetylase complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein kinase C binding|repressing transcription factor binding			lung(1)|breast(1)	2				GBM - Glioblastoma multiforme(48;0.137)		CCGGTCCCCCGCCATCTGTCT	0.687													8	19					0	0	0.008291	0	0	
VDR	7421	broad.mit.edu	37	12	48240547	48240547	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:48240547G>A	uc001rqm.2	-	9	1082	c.800C>T	c.(799-801)GCC>GTC	p.A267V	VDR_uc001rql.2_Missense_Mutation_p.A317V|VDR_uc001rqn.2_Missense_Mutation_p.A267V|VDR_uc010slq.1_Missense_Mutation_p.A235V	NM_001017535	NP_001017535	P11473	VDR_HUMAN	vitamin D (1,25-dihydroxyvitamin D3) receptor	267	Ligand-binding.				decidualization|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of vitamin D 24-hydroxylase activity|regulation of calcidiol 1-monooxygenase activity|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	retinoid X receptor binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|vitamin D3 receptor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Acute lymphoblastic leukemia(13;0.109)|all_hematologic(14;0.214)		GBM - Glioblastoma multiforme(48;0.17)	Calcidiol(DB00146)|Calcipotriol(DB02300)|Calcitriol(DB00136)|Dihydrotachysterol(DB01070)|Ergocalciferol(DB00153)|Paricalcitol(DB00910)	GACCTCAATGGCACTTGACTT	0.547													25	52					0	0	0.002836	0	0	
TMEM106C	79022	broad.mit.edu	37	12	48361942	48361942	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:48361942G>A	uc001rqp.2	+	8	798	c.683G>A	c.(682-684)GGC>GAC	p.G228D	TMEM106C_uc001rqo.2_Missense_Mutation_p.G209D|TMEM106C_uc001rqr.2_Missense_Mutation_p.G228D|TMEM106C_uc001rqq.2_Missense_Mutation_p.G209D	NM_024056	NP_076961	Q9BVX2	T106C_HUMAN	transmembrane protein 106C isoform a	228						endoplasmic reticulum membrane|integral to membrane					0		Acute lymphoblastic leukemia(13;0.11)		GBM - Glioblastoma multiforme(48;0.241)		TCATACATTGGCCTCATGACC	0.413													5	55					0	0	0.001168	0	0	
COL2A1	1280	broad.mit.edu	37	12	48369182	48369182	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:48369182G>A	uc001rqu.2	-	51	3985	c.3804C>T	c.(3802-3804)AGC>AGT	p.S1268S	COL2A1_uc001rqt.2_Silent_p.S49S|COL2A1_uc009zkw.2_RNA|COL2A1_uc001rqv.2_Silent_p.S1199S	NM_001844	NP_001835	P02458	CO2A1_HUMAN	collagen, type II, alpha 1 isoform 1 precursor	1268	Fibrillar collagen NC1.				axon guidance|collagen fibril organization|embryonic skeletal joint morphogenesis|sensory perception of sound|visual perception	collagen type II	identical protein binding|platelet-derived growth factor binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)			Collagenase(DB00048)	GGCTGCGGATGCTCTCAATCT	0.617													11	24					0	0	0.003163	0	0	
SENP1	29843	broad.mit.edu	37	12	48477397	48477397	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:48477397G>A	uc001rqx.2	-	6	975	c.529C>T	c.(529-531)CGA>TGA	p.R177*	SENP1_uc001rqw.2_Nonsense_Mutation_p.R177*|SENP1_uc001rqy.2_5'UTR|SENP1_uc001rqz.2_5'UTR|SENP1_uc009zkx.2_Nonsense_Mutation_p.R177*	NM_014554	NP_055369	Q9P0U3	SENP1_HUMAN	sentrin/SUMO-specific protease 1	177	Nuclear localization signal (Probable).				activation of caspase activity|induction of apoptosis by extracellular signals|protein desumoylation|proteolysis	cytoplasm|nucleus	endopeptidase activity|SUMO-specific protease activity			pancreas(2)|lung(1)	3		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)				CTAACATGTCGCCTCTGAGTT	0.398													12	52					0	0	0.001855	0	0	
PFKM	5213	broad.mit.edu	37	12	48534513	48534513	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:48534513G>A	uc001rrc.2	+	14	1370	c.1200G>A	c.(1198-1200)TCG>TCA	p.S400S	PFKM_uc001rra.1_Silent_p.S85S|PFKM_uc001rrb.1_Silent_p.S471S|PFKM_uc001rrd.2_Silent_p.S85S|PFKM_uc001rre.1_Silent_p.S400S|PFKM_uc001rrg.1_Silent_p.S369S	NM_000289	NP_000280	P08237	K6PF_HUMAN	phosphofructokinase, muscle	400					fructose 6-phosphate metabolic process|glycolysis|muscle cell homeostasis	6-phosphofructokinase complex|apical plasma membrane	6-phosphofructokinase activity|ATP binding|identical protein binding|kinase binding|metal ion binding|protein C-terminus binding			ovary(2)|upper_aerodigestive_tract(1)|kidney(1)	4						AGAGTGGTTCGCACACAGTGG	0.567													11	28					0	0	0.008871	0	0	
ASB8	140461	broad.mit.edu	37	12	48543596	48543596	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:48543596G>A	uc001rrh.2	-	4	589	c.420C>T	c.(418-420)AGC>AGT	p.S140S	ASB8_uc010slr.1_Silent_p.S136S	NM_024095	NP_077000	Q9H765	ASB8_HUMAN	ankyrin repeat and SOCS box-containing 8	140	ANK 3.				intracellular signal transduction	cytoplasm|nucleus				kidney(1)	1						CAGAGGCCCCGCTCTCTAGGA	0.517													13	48					0	0	0.001368	0	0	
ANP32D	23519	broad.mit.edu	37	12	48866816	48866816	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:48866816C>T	uc010slt.1	+	1	369	c.369C>T	c.(367-369)TGC>TGT	p.C123C		NM_012404	NP_036536	O95626	AN32D_HUMAN	acidic nuclear phosphoprotein 32D	123	LRR 5.									ovary(1)|central_nervous_system(1)	2						TTTTCACTTGCGAGGTAACCA	0.438													5	88					0	0	0.000602	0	0	
DDX23	9416	broad.mit.edu	37	12	49227064	49227064	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:49227064C>T	uc001rsm.2	-	13	1890	c.1799G>A	c.(1798-1800)CGC>CAC	p.R600H		NM_004818	NP_004809	Q9BUQ8	DDX23_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 23	600	Helicase ATP-binding.					catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent RNA helicase activity|nucleic acid binding|protein binding			kidney(3)|ovary(1)|lung(1)|skin(1)	6						CCTTACTTGGCGGTACTTATG	0.383													5	74					0	0	0.001168	0	0	
PRKAG1	5571	broad.mit.edu	37	12	49397360	49397360	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:49397360T>C	uc001rsy.2	-	10	791	c.722A>G	c.(721-723)TAC>TGC	p.Y241C	uc001rsw.2_Intron|PRKAG1_uc010smd.1_Missense_Mutation_p.Y209C|PRKAG1_uc001rsx.2_Missense_Mutation_p.Y157C|PRKAG1_uc001rsz.2_Missense_Mutation_p.Y250C|PRKAG1_uc009zlb.2_Missense_Mutation_p.Y53C	NM_002733	NP_002724	P54619	AAKG1_HUMAN	AMP-activated protein kinase, noncatalytic	241	CBS 3.				cell cycle arrest|fatty acid biosynthetic process|insulin receptor signaling pathway|positive regulation of protein kinase activity|regulation of fatty acid oxidation|regulation of glycolysis|spermatogenesis	cytosol	cAMP-dependent protein kinase activity|cAMP-dependent protein kinase regulator activity|protein kinase binding			kidney(1)	1						AAACTTGGAGTAGATGTCCAC	0.547													8	49					0	0	0.008291	0	0	
TUBA1C	84790	broad.mit.edu	37	12	49666675	49666675	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:49666675C>T	uc001rtt.1	+	4	1115	c.1015C>T	c.(1015-1017)CGT>TGT	p.R339C	TUBA1C_uc001rts.2_Missense_Mutation_p.R304C|TUBA1C_uc010smh.1_Missense_Mutation_p.R409C|uc010smi.1_5'UTR	NM_032704	NP_116093	Q9BQE3	TBA1C_HUMAN	tubulin alpha 6	339					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity				0						CAAAACCAAGCGTACCATCCA	0.532													17	42					0	0	0.010504	0	0	
TROAP	10024	broad.mit.edu	37	12	49719532	49719532	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:49719532T>C	uc001rtx.3	+	5	665	c.498T>C	c.(496-498)GGT>GGC	p.G166G	TROAP_uc009zlh.2_Silent_p.G166G|TROAP_uc001rty.2_5'Flank	NM_005480	NP_005471	Q12815	TROAP_HUMAN	tastin isoform 1	166					cell adhesion	cytoplasm				ovary(1)	1						TGTCCCAGGGTGTTCGGGCCT	0.627													9	18					0	0	0.008291	0	0	
TROAP	10024	broad.mit.edu	37	12	49722962	49722962	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:49722962C>T	uc001rtx.3	+	10	1206	c.1039C>T	c.(1039-1041)CGG>TGG	p.R347W	TROAP_uc009zlh.2_Missense_Mutation_p.R347W|TROAP_uc001rty.2_Missense_Mutation_p.R55W	NM_005480	NP_005471	Q12815	TROAP_HUMAN	tastin isoform 1	347					cell adhesion	cytoplasm				ovary(1)	1						TTCAGTGTTGCGGCGTCTCAC	0.567													12	185					0	0	0.004007	0	0	
MCRS1	10445	broad.mit.edu	37	12	49952676	49952676	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:49952676G>A	uc001ruk.1	-	14	1443	c.1252C>T	c.(1252-1254)CCG>TCG	p.P418S	MCRS1_uc001rui.1_Missense_Mutation_p.P431S|MCRS1_uc001ruj.1_Missense_Mutation_p.P405S|MCRS1_uc001rul.1_Missense_Mutation_p.P418S|MCRS1_uc009zlj.1_Missense_Mutation_p.P227S|MCRS1_uc001rum.1_Missense_Mutation_p.P405S	NM_006337	NP_006328	Q96EZ8	MCRS1_HUMAN	microspherule protein 1 isoform 1	418	FHA.				DNA recombination|DNA repair|protein modification process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|Ino80 complex|MLL1 complex|nucleolus	protein binding			large_intestine(1)	1						CAGAGCACCGGCCGTCCATCG	0.557													15	28					0	0	0.006122	0	0	
FAM186B	84070	broad.mit.edu	37	12	49994713	49994713	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:49994713G>A	uc001ruo.2	-	4	883	c.710C>T	c.(709-711)GCC>GTC	p.A237V	FAM186B_uc010smk.1_Missense_Mutation_p.A147V	NM_032130	NP_115506	Q8IYM0	F186B_HUMAN	hypothetical protein LOC84070	237						protein complex				ovary(1)	1						CACCACAGTGGCCATGTACCT	0.562													18	41					0	0	0.007413	0	0	
FMNL3	91010	broad.mit.edu	37	12	50043299	50043299	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:50043299G>A	uc001ruv.1	-	19	2492	c.2258C>T	c.(2257-2259)GCG>GTG	p.A753V	FMNL3_uc001ruw.1_Missense_Mutation_p.A702V|FMNL3_uc001rut.1_Missense_Mutation_p.A319V|FMNL3_uc001ruu.1_Missense_Mutation_p.A603V	NM_175736	NP_783863	Q8IVF7	FMNL3_HUMAN	formin-like 3 isoform 1	753	FH2.				actin cytoskeleton organization		actin binding|Rho GTPase binding			breast(2)|pancreas(2)	4						GGAAGCGGACGCCGCAATGAT	0.542													15	45					0	0	0.006122	0	0	
AQP6	363	broad.mit.edu	37	12	50367132	50367132	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:50367132C>T	uc001rvr.1	+	1	513	c.176C>T	c.(175-177)GCC>GTC	p.A59V	AQP6_uc001rvp.1_Intron|AQP6_uc001rvq.1_RNA	NM_001652	NP_001643	Q13520	AQP6_HUMAN	aquaporin 6	59	Helical; (Potential).				excretion|odontogenesis	integral to plasma membrane|transport vesicle membrane	anion channel activity|water channel activity				0						CTACAGATTGCCATCACCTTC	0.642													14	66					0	0	0.006122	0	0	
LIMA1	51474	broad.mit.edu	37	12	50594644	50594644	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:50594644G>A	uc001rwj.3	-	7	1062	c.888C>T	c.(886-888)GGC>GGT	p.G296G	LIMA1_uc001rwg.3_5'UTR|LIMA1_uc001rwh.3_Silent_p.G136G|LIMA1_uc001rwi.3_Silent_p.G136G|LIMA1_uc001rwk.3_Silent_p.G296G|LIMA1_uc010smr.1_RNA|LIMA1_uc010sms.1_RNA	NM_016357	NP_057441	Q9UHB6	LIMA1_HUMAN	LIM domain and actin binding 1 isoform b	296					actin filament bundle assembly|negative regulation of actin filament depolymerization|ruffle organization	cytoplasm|focal adhesion|stress fiber	actin filament binding|actin monomer binding|zinc ion binding			ovary(1)	1						TTTTGATTTCGCCACCACTGG	0.383													11	153					0	0	0.001368	0	0	
LARP4	113251	broad.mit.edu	37	12	50856385	50856385	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:50856385G>A	uc001rwp.1	+	12	1499	c.1355G>A	c.(1354-1356)CGA>CAA	p.R452Q	LARP4_uc001rwo.1_Missense_Mutation_p.R458Q|LARP4_uc001rwq.1_Missense_Mutation_p.R381Q|LARP4_uc001rwr.1_Missense_Mutation_p.R381Q|LARP4_uc001rws.1_Missense_Mutation_p.R451Q|LARP4_uc009zlr.1_Missense_Mutation_p.R271Q|LARP4_uc001rwt.1_Missense_Mutation_p.R43Q	NM_052879	NP_443111	Q71RC2	LARP4_HUMAN	c-Mpl binding protein isoform a	452							nucleotide binding|RNA binding			ovary(1)	1						TTCAGAGGTCGAAGACGACGA	0.383													24	52					0	0	0.003954	0	0	
DIP2B	57609	broad.mit.edu	37	12	51128878	51128878	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:51128878G>A	uc001rwv.2	+	34	4222	c.4066G>A	c.(4066-4068)GCC>ACC	p.A1356T	DIP2B_uc009zlt.2_Missense_Mutation_p.A786T	NM_173602	NP_775873	Q9P265	DIP2B_HUMAN	DIP2 disco-interacting protein 2 homolog B	1356						nucleus	catalytic activity|transcription factor binding			ovary(4)|breast(1)|pancreas(1)	6						GGAACGTGGCGCCCCTCAGAG	0.493											OREG0021816	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	57					0	0	0.001168	0	0	
DIP2B	57609	broad.mit.edu	37	12	51138606	51138606	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:51138606T>C	uc001rwv.2	+	38	4871	c.4715T>C	c.(4714-4716)GTG>GCG	p.V1572A	DIP2B_uc009zlt.2_Missense_Mutation_p.V1002A	NM_173602	NP_775873	Q9P265	DIP2B_HUMAN	DIP2 disco-interacting protein 2 homolog B	1572						nucleus	catalytic activity|transcription factor binding			ovary(4)|breast(1)|pancreas(1)	6						CCCATCTACGTGGCTTATAAC	0.522													4	63					0	0	0.009096	0	0	
DAZAP2	9802	broad.mit.edu	37	12	51636174	51636174	+	Missense_Mutation	SNP	G	A	A	rs144235964		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:51636174G>A	uc010snd.1	+	4	546	c.362G>A	c.(361-363)CGT>CAT	p.R121H	DAZAP2_uc001ryb.2_Missense_Mutation_p.V125I|DAZAP2_uc010snc.1_Missense_Mutation_p.V65I|DAZAP2_uc010sne.1_Missense_Mutation_p.V115I|DAZAP2_uc010snf.1_Intron	NM_001136266	NP_001129738	Q15038	DAZP2_HUMAN	DAZ associated protein 2 isoform c	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							WW domain binding				0						GGGAGCCAACGTCCTCGTAAC	0.562													67	202					0	0	0.003610	0	0	
BIN2	51411	broad.mit.edu	37	12	51693445	51693445	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:51693445G>A	uc001ryg.2	-	6	514	c.462C>T	c.(460-462)CAC>CAT	p.H154H	BIN2_uc009zlz.2_Silent_p.H122H|BIN2_uc001ryh.2_Silent_p.H30H|BIN2_uc010sng.1_Silent_p.H128H	NM_016293	NP_057377	Q9UBW5	BIN2_HUMAN	bridging integrator 2	154	BAR.					cytoplasm	protein binding			ovary(1)	1						CCTCCAGGTGGTGTCGGGCAC	0.488													38	94					0	0	0.008740	0	0	
GALNT6	11226	broad.mit.edu	37	12	51757930	51757930	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:51757930G>A	uc001ryk.2	-	5	1249	c.1024C>T	c.(1024-1026)CGC>TGC	p.R342C	GALNT6_uc009zma.1_RNA|GALNT6_uc001ryl.1_Missense_Mutation_p.R342C	NM_007210	NP_009141	Q8NCL4	GALT6_HUMAN	polypeptide N-acetylgalactosaminyltransferase 6	342	Lumenal (Potential).				protein O-linked glycosylation	Golgi membrane|integral to membrane|perinuclear region of cytoplasm	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)	2						TCATCCTTGCGCCTCTGCTTC	0.597													24	70					0	0	0.004656	0	0	
SLC4A8	9498	broad.mit.edu	37	12	51856118	51856118	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:51856118G>A	uc001rys.1	+	10	1304	c.1126G>A	c.(1126-1128)GCA>ACA	p.A376T	SLC4A8_uc010sni.1_Missense_Mutation_p.A323T|SLC4A8_uc001rym.2_Missense_Mutation_p.A323T|SLC4A8_uc001ryn.2_Missense_Mutation_p.A323T|SLC4A8_uc001ryo.2_Missense_Mutation_p.A323T|SLC4A8_uc001ryp.1_3'UTR|SLC4A8_uc010snj.1_Missense_Mutation_p.A403T|SLC4A8_uc001ryq.3_Missense_Mutation_p.A376T|SLC4A8_uc001ryr.2_Missense_Mutation_p.A376T|SLC4A8_uc010snk.1_Missense_Mutation_p.A323T	NM_001039960	NP_001035049	Q2Y0W8	S4A8_HUMAN	solute carrier family 4, sodium bicarbonate	376	Extracellular (Potential).				bicarbonate transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity			ovary(3)|pancreas(1)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(357;0.15)		AGCATATAAGGCAAAAGAGCG	0.443													8	147					0	0	0.003080	0	0	
SCN8A	6334	broad.mit.edu	37	12	52082586	52082586	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:52082586G>A	uc001ryw.2	+	6	837	c.659G>A	c.(658-660)CGC>CAC	p.R220H	SCN8A_uc010snl.1_Missense_Mutation_p.R85H|SCN8A_uc001ryx.1_Missense_Mutation_p.R85H|SCN8A_uc001ryz.1_Intron|SCN8A_uc001ryy.2_Intron	NM_014191	NP_055006	Q9UQD0	SCN8A_HUMAN	sodium channel, voltage gated, type VIII, alpha	220	Helical; Voltage-sensor; Name=S4 of repeat I; (Potential).|I.				axon guidance|myelination|peripheral nervous system development	cytoplasmic membrane-bounded vesicle|node of Ranvier	ATP binding|voltage-gated sodium channel activity			ovary(7)	7				BRCA - Breast invasive adenocarcinoma(357;0.181)	Lamotrigine(DB00555)	TCAGCTCTACGCACTTTCAGG	0.468													7	154					0	0	0.003080	0	0	
ACVR1B	91	broad.mit.edu	37	12	52385715	52385715	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:52385715C>T	uc001rzn.2	+	8	1372	c.1330C>T	c.(1330-1332)CGA>TGA	p.R444*	ACVR1B_uc001rzm.2_Nonsense_Mutation_p.R444*|ACVR1B_uc010snn.1_Nonsense_Mutation_p.R485*	NM_004302	NP_004293	P36896	ACV1B_HUMAN	activin A receptor, type IB isoform a precursor	444	Protein kinase.|Cytoplasmic (Potential).				G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|peptidyl-threonine phosphorylation|positive regulation of activin receptor signaling pathway|positive regulation of erythrocyte differentiation|protein autophosphorylation|transmembrane receptor protein serine/threonine kinase signaling pathway	cell surface	activin receptor activity, type I|ATP binding|metal ion binding|SMAD binding|transforming growth factor beta receptor activity|ubiquitin protein ligase binding	p.R485*(1)		pancreas(4)|breast(2)|ovary(1)|lung(1)|kidney(1)	9				BRCA - Breast invasive adenocarcinoma(357;0.104)	Adenosine triphosphate(DB00171)	TGAGGAAATGCGAAAGGTTGT	0.488													31	120					0	0	0.003755	0	0	
KRT86	3892	broad.mit.edu	37	12	52695732	52695732	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:52695732C>T	uc010snq.1	+	2	165	c.32C>T	c.(31-33)GCC>GTC	p.A11V	KRT86_uc009zmg.2_Missense_Mutation_p.A11V|KRT81_uc001sac.2_Intron|KRT86_uc001sad.2_Missense_Mutation_p.A11V	NM_002284	NP_002275	O43790	KRT86_HUMAN	keratin 86	11	Head.				cytoskeleton organization	keratin filament	structural molecule activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(357;0.189)		GGTGGCCGCGCCTTCAGCTGC	0.667													6	24					0	0	0.000978	0	0	
KRT75	9119	broad.mit.edu	37	12	52822241	52822241	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:52822241G>A	uc001saj.2	-	7	1203	c.1181C>T	c.(1180-1182)GCC>GTC	p.A394V		NM_004693	NP_004684	O95678	K2C75_HUMAN	keratin 75	394	Coil 2.|Rod.					keratin filament	structural molecule activity				0				BRCA - Breast invasive adenocarcinoma(357;0.192)		ATCAGCAATGGCCGTTTGCAA	0.572													4	14					0	0	0.001168	0	0	
KRT6C	286887	broad.mit.edu	37	12	52864995	52864995	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:52864995A>T	uc001sal.3	-	5	1046	c.998T>A	c.(997-999)ATC>AAC	p.I333N		NM_173086	NP_775109	P48668	K2C6C_HUMAN	keratin 6C	333	Rod.|Linker 12.				cytoskeleton organization	keratin filament	structural molecule activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.0828)		CTCAGCGATGATGCTGTCCAG	0.582													57	148					0	0	0.003610	0	0	
KRT71	112802	broad.mit.edu	37	12	52940272	52940272	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:52940272C>T	uc001sao.2	-	7	1193	c.1123G>A	c.(1123-1125)GCC>ACC	p.A375T		NM_033448	NP_258259	Q3SY84	K2C71_HUMAN	keratin 71	375	Coil 2.|Rod.						structural molecule activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(357;0.194)		TCAGCGATGGCTGTCTCCAGG	0.587													5	20					0	0	0.001168	0	0	
KRT8	3856	broad.mit.edu	37	12	53292668	53292668	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:53292668C>T	uc001sbd.2	-	6	1100	c.997G>A	c.(997-999)GCC>ACC	p.A333T	KRT8_uc009zmj.2_Intron|KRT8_uc009zmk.1_Missense_Mutation_p.A361T|KRT8_uc009zml.1_Missense_Mutation_p.A333T|KRT8_uc009zmm.1_Missense_Mutation_p.A333T	NM_002273	NP_002264	P05787	K2C8_HUMAN	keratin 8	333	Necessary for interaction with PNN.|Rod.|Coil 2.				cytoskeleton organization|interspecies interaction between organisms	cytoplasm|keratin filament|nuclear matrix|nucleoplasm	protein binding|structural molecule activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(357;0.108)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GCAATGGCGGCCTCCAGGGAA	0.642													8	28					0	0	0.006214	0	0	
EIF4B	1975	broad.mit.edu	37	12	53428437	53428437	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:53428437G>A	uc001sbh.3	+	10	1456	c.1250G>A	c.(1249-1251)CGG>CAG	p.R417Q	EIF4B_uc010snu.1_Missense_Mutation_p.R417Q|EIF4B_uc010snv.1_Missense_Mutation_p.R378Q|EIF4B_uc001sbi.2_Missense_Mutation_p.R169Q	NM_001417	NP_001408	P23588	IF4B_HUMAN	eukaryotic translation initiation factor 4B	417					insulin receptor signaling pathway|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	nucleotide binding|translation initiation factor activity			breast(1)|kidney(1)	2						GAACGGGAACGGTCGAGGACA	0.498													5	184					0	0	0.000602	0	0	
TENC1	23371	broad.mit.edu	37	12	53446255	53446255	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:53446255G>A	uc001sbp.2	+	3	336	c.201G>A	c.(199-201)ACG>ACA	p.T67T	uc001sbk.1_Intron|TENC1_uc001sbl.2_5'UTR|TENC1_uc001sbm.2_Silent_p.T77T|TENC1_uc001sbn.2_Silent_p.T77T|TENC1_uc001sbo.1_Silent_p.T67T	NM_170754	NP_736610	Q63HR2	TENC1_HUMAN	tensin like C1 domain containing phosphatase	67	Phorbol-ester/DAG-type.				intracellular signal transduction|negative regulation of cell proliferation	focal adhesion	metal ion binding|phosphoprotein phosphatase activity|protein binding			ovary(1)|pancreas(1)	2						AGGTGGCGACGCACAGAAAAT	0.567													39	131					0	0	0.003610	0	0	
SP7	121340	broad.mit.edu	37	12	53723085	53723085	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:53723085C>T	uc001sct.2	-	2	248	c.141G>A	c.(139-141)CCG>CCA	p.P47P	SP7_uc001scu.2_Silent_p.P29P|SP7_uc001scv.2_Silent_p.P47P	NM_152860	NP_690599	Q8TDD2	SP7_HUMAN	osterix	47					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CCACAGAGTACGGCTTCTTTG	0.572													31	107					0	0	0.004878	0	0	
SP1	6667	broad.mit.edu	37	12	53776267	53776267	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:53776267T>C	uc001scw.2	+	3	633	c.536T>C	c.(535-537)TTC>TCC	p.F179S	SP1_uc010sog.1_Missense_Mutation_p.F172S	NM_138473	NP_612482	P08047	SP1_HUMAN	Sp1 transcription factor isoform a	179	Transactivation domain A (Gln-rich).				positive regulation by host of viral transcription|positive regulation of transcription from RNA polymerase II promoter	cytoplasm	double-stranded DNA binding|histone deacetylase binding|HMG box domain binding|protein C-terminus binding|protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(357;0.00527)		ATCCCACAGTTCCAGACCGTT	0.502													36	57					0	0	0.003755	0	0	
HOXC10	3226	broad.mit.edu	37	12	54379097	54379097	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:54379097G>A	uc001sen.2	+	1	152	c.54G>A	c.(52-54)GCG>GCA	p.A18A		NM_017409	NP_059105	Q9NYD6	HXC10_HUMAN	homeobox C10	18					positive regulation of cell proliferation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(1)	1						CCTTGGCTGCGCCCGGCGGAG	0.592													28	59					0	0	0.002096	0	0	
HOXC10	3226	broad.mit.edu	37	12	54379557	54379557	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:54379557G>A	uc001sen.2	+	1	612	c.514G>A	c.(514-516)GCC>ACC	p.A172T		NM_017409	NP_059105	Q9NYD6	HXC10_HUMAN	homeobox C10	172					positive regulation of cell proliferation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(1)	1						CGACTTCGAAGCCCCTTTCGA	0.652													6	22					0	0	0.006214	0	0	
HOXC9	3225	broad.mit.edu	37	12	54396240	54396240	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:54396240G>A	uc001sep.2	+	3	663	c.565G>A	c.(565-567)GCC>ACC	p.A189T	HOXC9_uc001seq.2_Missense_Mutation_p.A189T	NM_006897	NP_008828	P31274	HXC9_HUMAN	homeobox C9	189					multicellular organismal development	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|pancreas(1)|skin(1)	3						CTGGATTCACGCCCGCTCCAC	0.572													19	60					0	0	0.001882	0	0	
HOXC6	3223	broad.mit.edu	37	12	54423569	54423569	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:54423569G>A	uc001sev.2	+	2	643	c.531G>A	c.(529-531)GCG>GCA	p.A177A	HOXC6_uc001ses.2_Silent_p.A95A|HOXC5_uc001set.2_Intron|HOXC4_uc001seu.2_Intron	NM_004503	NP_004494	P09630	HXC6_HUMAN	homeobox C6 isoform 1	177	Homeobox.				regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)|upper_aerodigestive_tract(1)	3						TCGCCAACGCGCTTTGCCTGA	0.567													19	63					0	0	0.002780	0	0	
HOXC5	3222	broad.mit.edu	37	12	54428168	54428168	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:54428168G>T	uc001sew.2	+	2	636	c.561G>T	c.(559-561)GAG>GAT	p.E187D	HOXC5_uc001set.2_RNA|HOXC4_uc001seu.2_Intron	NM_018953	NP_061826	Q00444	HXC5_HUMAN	homeobox C5	187	Homeobox.				regulation of transcription from RNA polymerase II promoter	cell junction|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GGCGCATAGAGATCGCCAACA	0.498													27	88					3.86903e-22	4.24374e-22	0.002836	1	0	
ITGA5	3678	broad.mit.edu	37	12	54799107	54799107	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:54799107G>A	uc001sga.2	-	12	1136	c.1068C>T	c.(1066-1068)GAC>GAT	p.D356D	ITGA5_uc010sow.1_RNA|ITGA5_uc009znp.1_RNA	NM_002205	NP_002196	P08648	ITA5_HUMAN	integrin alpha 5 precursor	356	Extracellular (Potential).|FG-GAP 5.				angiogenesis|axon guidance|blood coagulation|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte migration|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway|wound healing, spreading of epidermal cells	alphav-beta3 integrin-vitronectin complex|integrin complex|ruffle	platelet-derived growth factor receptor binding|receptor activity|vascular endothelial growth factor receptor 2 binding			ovary(2)	2						GAGGCCGCCCGTCAGGGGTCC	0.642													6	3					0	0	0.001168	0	0	
NEUROD4	58158	broad.mit.edu	37	12	55420335	55420335	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:55420335C>T	uc001sgp.3	+	2	490	c.112C>T	c.(112-114)CCA>TCA	p.P38S		NM_021191	NP_067014	Q9HD90	NDF4_HUMAN	neurogenic differentiation 4	38					amacrine cell differentiation|positive regulation of cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(3)|skin(1)	4						AGAGAGCAGACCAGGTACTTA	0.413													5	49					0	0	0.001168	0	0	
NEUROD4	58158	broad.mit.edu	37	12	55420539	55420539	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:55420539G>A	uc001sgp.3	+	2	694	c.316G>A	c.(316-318)GCC>ACC	p.A106T		NM_021191	NP_067014	Q9HD90	NDF4_HUMAN	neurogenic differentiation 4	106	Helix-loop-helix motif.				amacrine cell differentiation|positive regulation of cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(3)|skin(1)	4						CCTGAATGACGCCCTGGATAA	0.483													8	78					0	0	0.006214	0	0	
OR6C3	254786	broad.mit.edu	37	12	55726283	55726283	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:55726283T>C	uc010spj.1	+	1	799	c.799T>C	c.(799-801)TTG>CTG	p.L267L		NM_054104	NP_473445	Q9NZP0	OR6C3_HUMAN	olfactory receptor, family 6, subfamily C,	267	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						AAAGGCATCATTGACAAAAGG	0.383													13	44					0	0	0.001368	0	0	
OR6C65	403282	broad.mit.edu	37	12	55794672	55794672	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:55794672C>T	uc010spl.1	+	1	360	c.360C>T	c.(358-360)CGC>CGT	p.R120R		NM_001005518	NP_001005518	A6NJZ3	O6C65_HUMAN	olfactory receptor, family 6, subfamily C,	120	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CTTATGATCGCTATGTGGCTA	0.378													32	88					0	0	0.003271	0	0	
GDF11	10220	broad.mit.edu	37	12	56143477	56143477	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:56143477C>T	uc001shq.2	+	3	1072	c.1035C>T	c.(1033-1035)TGC>TGT	p.C345C	GDF11_uc010spv.1_Silent_p.C345C	NM_005811	NP_005802	O95390	GDF11_HUMAN	growth differentiation factor 11 precursor	345					growth|mesoderm development|skeletal system development	extracellular space	cytokine activity|growth factor activity			kidney(1)	1						CCGGCCAGTGCGAGTACATGT	0.562													7	124					0	0	0.004482	0	0	
DGKA	1606	broad.mit.edu	37	12	56346910	56346910	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:56346910C>T	uc001sij.2	+	22	2293	c.2029C>T	c.(2029-2031)CGT>TGT	p.R677C	DGKA_uc001sik.2_Missense_Mutation_p.R677C|DGKA_uc001sil.2_Missense_Mutation_p.R677C|DGKA_uc001sim.2_Missense_Mutation_p.R677C|DGKA_uc001sin.2_Missense_Mutation_p.R677C|DGKA_uc009zof.2_Missense_Mutation_p.R323C|DGKA_uc001sio.2_Missense_Mutation_p.R419C	NM_001345	NP_001336	P23743	DGKA_HUMAN	diacylglycerol kinase, alpha 80kDa	677					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity			ovary(3)|pancreas(1)	4					Vitamin E(DB00163)	GAATGCTGGACGTCGGCTGGC	0.562													16	55					0	0	0.007413	0	0	
ERBB3	2065	broad.mit.edu	37	12	56478854	56478854	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:56478854G>A	uc001sjh.2	+	3	503	c.310G>A	c.(310-312)GTG>ATG	p.V104M	ERBB3_uc009zoj.2_RNA|ERBB3_uc010sqb.1_Intron|ERBB3_uc010sqc.1_Missense_Mutation_p.V45M|ERBB3_uc001sjg.2_Missense_Mutation_p.V104M	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	104	Extracellular (Potential).		V -> M (in an ovarian mucinous carcinoma sample; somatic mutation).		cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity	p.V104M(1)		lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			CAACCTCCGCGTGGTGCGAGG	0.517													10	117					0	0	0.006214	0	0	
PAN2	9924	broad.mit.edu	37	12	56716264	56716264	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:56716264G>A	uc001skx.2	-	19	3025	c.2652C>T	c.(2650-2652)GGC>GGT	p.G884G	PAN2_uc001skw.2_Silent_p.G32G|PAN2_uc001skz.2_Silent_p.G883G|PAN2_uc001sky.2_Silent_p.G880G	NM_001127460	NP_001120932	Q504Q3	PAN2_HUMAN	PAN2 polyA specific ribonuclease subunit homolog	884					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|ubiquitin-dependent protein catabolic process	cytosol|nucleus	nucleic acid binding|poly(A)-specific ribonuclease activity|ubiquitin thiolesterase activity			ovary(2)|skin(2)|large_intestine(1)|breast(1)	6						GGTGAGTAACGCCCTATGGAA	0.433													19	66					0	0	0.008871	0	0	
TIMELESS	8914	broad.mit.edu	37	12	56811784	56811784	+	Missense_Mutation	SNP	C	T	T	rs150055938	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:56811784C>T	uc001slf.2	-	28	3631	c.3463G>A	c.(3463-3465)GCT>ACT	p.A1155T		NM_003920	NP_003911	Q9UNS1	TIM_HUMAN	timeless homolog	1155					cell division|circadian rhythm|detection of abiotic stimulus|mitosis|morphogenesis of an epithelium|negative regulation of transcription, DNA-dependent|regulation of S phase|response to DNA damage stimulus|transcription, DNA-dependent	nuclear chromatin				ovary(5)|breast(2)|pancreas(1)	8						TTACCAACAGCGTCTTCCTCT	0.502													30	95					0	0	0.002445	0	0	
BAZ2A	11176	broad.mit.edu	37	12	56992460	56992460	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:56992460C>T	uc001slq.1	-	29	5854	c.5660G>A	c.(5659-5661)CGC>CAC	p.R1887H	BAZ2A_uc001slp.1_Missense_Mutation_p.R1885H|BAZ2A_uc001slo.1_Missense_Mutation_p.R693H|BAZ2A_uc009zov.1_Missense_Mutation_p.R853H|BAZ2A_uc009zow.1_Missense_Mutation_p.R1855H	NM_013449	NP_038477	Q9UIF9	BAZ2A_HUMAN	bromodomain adjacent to zinc finger domain, 2A	1887					chromatin silencing at rDNA|DNA methylation|transcription, DNA-dependent	chromatin silencing complex|nucleolus|rDNA heterochromatin	DNA binding|histone acetyl-lysine binding|ligand-dependent nuclear receptor binding|RNA binding|zinc ion binding				0						GAAGAAGCGGCGCATGATGTG	0.562													8	37					0	0	0.004482	0	0	
ZBTB39	9880	broad.mit.edu	37	12	57397343	57397343	+	Silent	SNP	G	A	A	rs150115700		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:57397343G>A	uc001sml.1	-	2	1445	c.1359C>T	c.(1357-1359)TGC>TGT	p.C453C	RDH16_uc010sqx.1_5'Flank	NM_014830	NP_055645	O15060	ZBT39_HUMAN	zinc finger and BTB domain containing 39	453					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1						CACAGGCAGCGCATTTCAGCT	0.552													12	33					0	0	0.003163	0	0	
LRP1	4035	broad.mit.edu	37	12	57548147	57548147	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:57548147C>T	uc001snd.2	+	7	1464	c.998C>T	c.(997-999)GCC>GTC	p.A333V	LRP1_uc001snc.1_Missense_Mutation_p.A333V	NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	333	Extracellular (Potential).|LDL-receptor class B 1.				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	CTGGACCCTGCCATGGGGTGA	0.552													4	28					0	0	0.009096	0	0	
LRP1	4035	broad.mit.edu	37	12	57595585	57595585	+	Silent	SNP	C	T	T	rs138672668		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:57595585C>T	uc001snd.2	+	67	10957	c.10491C>T	c.(10489-10491)GAC>GAT	p.D3497D		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	3497	Extracellular (Potential).|LDL-receptor class A 25.				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	GTGGTGTGGACGAGTTCCGCT	0.627													15	56					0	0	0.004990	0	0	
LRP1	4035	broad.mit.edu	37	12	57605717	57605717	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:57605717C>A	uc001snd.2	+	87	13732	c.13266C>A	c.(13264-13266)GCC>GCA	p.A4422A		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	4422	Helical; (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	CAGATATAGCCTCCATCCTAA	0.602													7	34					0.000442599	0.000462162	0.006214	1	0	
NXPH4	11247	broad.mit.edu	37	12	57619402	57619402	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:57619402G>A	uc010srf.1	+	2	974	c.799G>A	c.(799-801)GCC>ACC	p.A267T	NXPH4_uc009zpj.2_Missense_Mutation_p.A73T	NM_007224	NP_009155	O95158	NXPH4_HUMAN	neurexophilin 4 precursor	267	V (Cys-rich).				neuropeptide signaling pathway	extracellular region					0						GAGCCAGGCCGCCTGGCTCTG	0.567													10	16					0	0	0.006214	0	0	
GEFT	115557	broad.mit.edu	37	12	58009072	58009072	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:58009072C>T	uc001spb.2	+	11	1473	c.1013C>T	c.(1012-1014)ACG>ATG	p.T338M	GEFT_uc009zpy.2_Missense_Mutation_p.T377M|GEFT_uc001soz.1_Intron|GEFT_uc001spa.2_Missense_Mutation_p.T232M|uc001spc.2_RNA|GEFT_uc001spd.2_Missense_Mutation_p.T43M	NM_182947	NP_891992	Q86VW2	ARHGP_HUMAN	RhoA/RAC/CDC42 exchange factor isoform 1	338					regulation of Rho protein signal transduction	cytosol|plasma membrane|sarcomere	Rho guanyl-nucleotide exchange factor activity				0	Melanoma(17;0.122)					GATATGATGACGCTGGGGAGA	0.562													10	26					0	0	0.000978	0	0	
OS9	10956	broad.mit.edu	37	12	58090083	58090083	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:58090083G>A	uc001spj.2	+	5	565	c.506G>A	c.(505-507)CGC>CAC	p.R169H	OS9_uc010srx.1_Intron|OS9_uc001spk.2_Missense_Mutation_p.R169H|OS9_uc001spl.2_Missense_Mutation_p.R169H|OS9_uc001spm.2_Missense_Mutation_p.R169H|OS9_uc001spn.2_Missense_Mutation_p.R169H|OS9_uc010sry.1_Intron|OS9_uc010srz.1_Missense_Mutation_p.R110H	NM_006812	NP_006803	Q13438	OS9_HUMAN	osteosarcoma amplified 9, endoplasmic reticulum	169	PRKCSH.				ER-associated protein catabolic process|protein retention in ER lumen|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to endoplasmic reticulum stress	endoplasmic reticulum lumen|Hrd1p ubiquitin ligase complex	glycoprotein binding|protein binding|sugar binding			ovary(1)	1	all_neural(12;0.00548)|Glioma(12;0.0126)|Melanoma(17;0.122)		BRCA - Breast invasive adenocarcinoma(9;0.109)			CGTCTTAAACGCTACCACAGC	0.557													18	33					0	0	0.002780	0	0	
AGAP2	116986	broad.mit.edu	37	12	58120958	58120958	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:58120958C>T	uc001spq.2	-	18	3135	c.3135G>A	c.(3133-3135)GCG>GCA	p.A1045A	AGAP2_uc001spo.1_5'Flank|AGAP2_uc001spp.2_Silent_p.A1044A|AGAP2_uc001spr.2_Silent_p.A689A|LOC100130776_uc001sps.3_Silent_p.G61G	NM_001122772	NP_001116244	Q99490	AGAP2_HUMAN	centaurin, gamma 1 isoform PIKE-L	1045	Arf-GAP.				axon guidance|negative regulation of neuron apoptosis|negative regulation of protein catabolic process|protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	mitochondrion|nucleolus	ARF GTPase activator activity|GTP binding|zinc ion binding			central_nervous_system(3)|breast(2)	5						TGCTCAGCGGCGCCAGGAACA	0.672											OREG0021951	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	5					0	0	0.009096	0	0	
AVIL	10677	broad.mit.edu	37	12	58197057	58197057	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:58197057G>A	uc001sqj.1	-	15	1964	c.1935C>T	c.(1933-1935)GAC>GAT	p.D645D	AVIL_uc009zqe.1_Silent_p.D638D|AVIL_uc001sqk.1_Silent_p.D223D	NM_006576	NP_006567	O75366	AVIL_HUMAN	advillin	645	Gelsolin-like 6.|Core (By similarity).				actin filament capping|cilium morphogenesis|cytoskeleton organization|positive regulation of neuron projection development	actin cytoskeleton|axon|cytoplasm	actin binding			central_nervous_system(1)	1	Glioma(12;6.95e-05)|all_neural(12;0.00016)|Melanoma(17;0.122)					GGAGCATCACGTCAGTAGGGT	0.478											OREG0021955	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	39	123					0	0	0.008740	0	0	
CTDSP2	10106	broad.mit.edu	37	12	58223300	58223300	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:58223300C>T	uc001sqm.2	-	2	673	c.144G>A	c.(142-144)CAG>CAA	p.Q48Q	CTDSP2_uc009zqf.2_5'UTR|CTDSP2_uc009zqg.2_Intron	NM_005730	NP_005721	O14595	CTDS2_HUMAN	nuclear LIM interactor-interacting factor 2	48					protein dephosphorylation	nucleus|soluble fraction	CTD phosphatase activity|metal ion binding			central_nervous_system(1)	1	all_neural(12;0.00559)|Glioma(12;0.0143)|Melanoma(17;0.122)					GGCCAACATGCTGGGCGCGAA	0.537													9	155					0	0	0.004482	0	0	
SLC16A7	9194	broad.mit.edu	37	12	60168512	60168512	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:60168512G>A	uc001sqs.2	+	5	735	c.436G>A	c.(436-438)GCA>ACA	p.A146T	SLC16A7_uc001sqt.2_Missense_Mutation_p.A146T|SLC16A7_uc001squ.2_Missense_Mutation_p.A146T|SLC16A7_uc009zqi.2_Missense_Mutation_p.A47T|SLC16A7_uc010ssi.1_Missense_Mutation_p.A47T	NM_004731	NP_004722	O60669	MOT2_HUMAN	solute carrier family 16, member 7	146	Cytoplasmic (Potential).					integral to plasma membrane|membrane fraction	pyruvate secondary active transmembrane transporter activity|secondary active monocarboxylate transmembrane transporter activity|symporter activity			ovary(1)	1				GBM - Glioblastoma multiforme(3;0.0303)	Pyruvic acid(DB00119)	GCGACCCATGGCAAATGGATT	0.418													7	52					0	0	0.003080	0	0	
PPM1H	57460	broad.mit.edu	37	12	63182064	63182064	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:63182064C>T	uc001srk.3	-	4	960	c.811G>A	c.(811-813)GCC>ACC	p.A271T		NM_020700	NP_065751	Q9ULR3	PPM1H_HUMAN	protein phosphatase 1H (PP2C domain containing)	271	PP2C-like.						phosphoprotein phosphatase activity			lung(3)|ovary(1)	4			GBM - Glioblastoma multiforme(1;0.000443)|BRCA - Breast invasive adenocarcinoma(9;0.209)	GBM - Glioblastoma multiforme(28;0.0126)		ACAATGAGGGCCGTGCAGCCA	0.443													4	19					0	0	0.009096	0	0	
AVPR1A	552	broad.mit.edu	37	12	63543935	63543935	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:63543935G>A	uc001sro.1	-	1	2656	c.682C>T	c.(682-684)CCC>TCC	p.P228S		NM_000706	NP_000697	P37288	V1AR_HUMAN	arginine vasopressin receptor 1A	228	Helical; Name=5; (Potential).				activation of phospholipase C activity|elevation of cytosolic calcium ion concentration|generation of precursor metabolites and energy	endosome|integral to plasma membrane	protein kinase C binding|vasopressin receptor activity				0			BRCA - Breast invasive adenocarcinoma(9;0.193)	GBM - Glioblastoma multiforme(28;0.0569)	Conivaptan(DB00872)|Desmopressin(DB00035)|Felypressin(DB00093)|Terlipressin(DB02638)|Vasopressin(DB00067)	ATGACCACGGGCGCCACAAAG	0.622													14	31					0	0	0.004990	0	0	
AVPR1A	552	broad.mit.edu	37	12	63544099	63544099	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:63544099G>A	uc001sro.1	-	1	2492	c.518C>T	c.(517-519)GCC>GTC	p.A173V		NM_000706	NP_000697	P37288	V1AR_HUMAN	arginine vasopressin receptor 1A	173	Helical; Name=4; (Potential).				activation of phospholipase C activity|elevation of cytosolic calcium ion concentration|generation of precursor metabolites and energy	endosome|integral to plasma membrane	protein kinase C binding|vasopressin receptor activity				0			BRCA - Breast invasive adenocarcinoma(9;0.193)	GBM - Glioblastoma multiforme(28;0.0569)	Conivaptan(DB00872)|Desmopressin(DB00035)|Felypressin(DB00093)|Terlipressin(DB02638)|Vasopressin(DB00067)	CACCCAGGCGGCCGCGATCAT	0.637													10	18					0	0	0.001855	0	0	
SRGAP1	57522	broad.mit.edu	37	12	64377886	64377886	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:64377886C>T	uc010ssp.1	+	2	283	c.227C>T	c.(226-228)GCA>GTA	p.A76V	SRGAP1_uc001srt.2_Missense_Mutation_p.A76V|SRGAP1_uc001srv.2_Missense_Mutation_p.A36V	NM_020762	NP_065813	Q7Z6B7	SRGP1_HUMAN	SLIT-ROBO Rho GTPase activating protein 1	76	FCH.				axon guidance	cytosol				ovary(2)|central_nervous_system(2)	4			GBM - Glioblastoma multiforme(3;0.000139)|BRCA - Breast invasive adenocarcinoma(9;0.225)	GBM - Glioblastoma multiforme(28;0.0608)		AGGTTCATGGCAAAAACAAGA	0.398													39	121					0	0	0.009718	0	0	
SRGAP1	57522	broad.mit.edu	37	12	64505708	64505708	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:64505708G>T	uc010ssp.1	+	17	2142	c.2086G>T	c.(2086-2088)GAT>TAT	p.D696Y	SRGAP1_uc001srv.2_Missense_Mutation_p.D633Y	NM_020762	NP_065813	Q7Z6B7	SRGP1_HUMAN	SLIT-ROBO Rho GTPase activating protein 1	696					axon guidance	cytosol				ovary(2)|central_nervous_system(2)	4			GBM - Glioblastoma multiforme(3;0.000139)|BRCA - Breast invasive adenocarcinoma(9;0.225)	GBM - Glioblastoma multiforme(28;0.0608)		TATTTTCCCAGATGCTAAAGA	0.413													18	66					4.63292e-17	5.06035e-17	0.008871	1	0	
XPOT	11260	broad.mit.edu	37	12	64812733	64812733	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:64812733G>A	uc001ssb.2	+	6	774	c.348G>A	c.(346-348)GAG>GAA	p.E116E	XPOT_uc009zqm.1_Silent_p.E26E	NM_007235	NP_009166	O43592	XPOT_HUMAN	tRNA exportin	116	Necessary for interaction with Ran, nuclear localization and nuclear import.				intracellular protein transport|tRNA export from nucleus	cytoplasm|nucleoplasm	protein transporter activity|tRNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(28;0.0404)		TTGTTACAGAGTATCTCACTA	0.438													7	102					0	0	0.004482	0	0	
HELB	92797	broad.mit.edu	37	12	66703905	66703905	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:66703905T>C	uc001sti.2	+	4	1225	c.1197T>C	c.(1195-1197)GAT>GAC	p.D399D	HELB_uc010ssz.1_RNA|HELB_uc009zqt.1_RNA	NM_033647	NP_387467	Q8NG08	HELB_HUMAN	helicase (DNA) B	399					DNA replication, synthesis of RNA primer		ATP binding|ATP-dependent 5'-3' DNA helicase activity|single-stranded DNA-dependent ATP-dependent DNA helicase activity			central_nervous_system(1)|pancreas(1)	2			GBM - Glioblastoma multiforme(2;0.000142)	GBM - Glioblastoma multiforme(28;0.0265)		ATTCAAGCGATGATGCATTGA	0.418													52	156					0	0	0.003610	0	0	
CAND1	55832	broad.mit.edu	37	12	67699777	67699777	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:67699777C>T	uc001stn.2	+	10	2766	c.2329C>T	c.(2329-2331)CGC>TGC	p.R777C	CAND1_uc001sto.2_Missense_Mutation_p.R287C	NM_018448	NP_060918	Q86VP6	CAND1_HUMAN	TIP120 protein	777	HEAT 18.				cell differentiation|negative regulation of catalytic activity|protein ubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|ubiquitin ligase complex	protein binding			central_nervous_system(1)|skin(1)	2			GBM - Glioblastoma multiforme(1;1.13e-10)|Lung(24;0.000342)|LUSC - Lung squamous cell carcinoma(43;0.196)	GBM - Glioblastoma multiforme(28;0.0279)		GGATTTGTTGCGCATGCTGAC	0.448													18	89					0	0	0.008871	0	0	
IFNG	3458	broad.mit.edu	37	12	68551823	68551823	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:68551823A>G	uc001stw.1	-	3	362	c.236T>C	c.(235-237)CTT>CCT	p.L79P		NM_000619	NP_000610	P01579	IFNG_HUMAN	interferon, gamma precursor	79					cell cycle arrest|interferon-gamma-mediated signaling pathway|negative regulation of interleukin-17 production|negative regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of metanephric nephron tubule epithelial cell differentiation|negative regulation of smooth muscle cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of calcidiol 1-monooxygenase activity|positive regulation of fructose 1,6-bisphosphate 1-phosphatase activity|positive regulation of fructose 1,6-bisphosphate metabolic process|positive regulation of interleukin-12 production|positive regulation of interleukin-23 production|positive regulation of killing of cells of other organism|positive regulation of membrane protein ectodomain proteolysis|positive regulation of mesenchymal cell proliferation|positive regulation of nitric oxide biosynthetic process|positive regulation of osteoclast differentiation|positive regulation of peptidyl-serine phosphorylation of STAT protein|positive regulation of smooth muscle cell apoptosis|positive regulation of tumor necrosis factor (ligand) superfamily member 11 production|positive regulation of tyrosine phosphorylation of Stat1 protein|positive regulation of vitamin D biosynthetic process|protein import into nucleus, translocation|regulation of insulin secretion|regulation of interferon-gamma-mediated signaling pathway|response to virus	extracellular space	cytokine activity|interferon-gamma receptor binding				0			Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.018)	GBM - Glioblastoma multiforme(7;0.000829)	Glucosamine(DB01296)|Interferon gamma-1b(DB00033)|Simvastatin(DB00641)	GTTTTTAAAAAGTTTGAAGTA	0.358													13	42					0	0	0.001368	0	0	
RAP1B	5908	broad.mit.edu	37	12	69042508	69042508	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:69042508C>T	uc001sub.2	+	2	167	c.4C>T	c.(4-6)CGT>TGT	p.R2C	RAP1B_uc010ste.1_Intron|RAP1B_uc001suc.2_Missense_Mutation_p.R2C|RAP1B_uc010stf.1_Missense_Mutation_p.R2C|RAP1B_uc010stg.1_Missense_Mutation_p.R2C|RAP1B_uc010sth.1_Missense_Mutation_p.R2C|RAP1B_uc010sti.1_Missense_Mutation_p.R2C	NM_001089704	NP_001083173	P61224	RAP1B_HUMAN	SubName: Full=Ras-related protein Rap-1A; SubName: Full=cDNA FLJ75985, highly similar to Homo sapiens RAP1A, member of RAS oncogene family (RAP1A), transcript variant 2, mRNA; SubName: Full=RAP1A, member of RAS oncogene family;	2					blood coagulation|energy reserve metabolic process|regulation of establishment of cell polarity|regulation of insulin secretion	cell-cell junction|cytosol	GDP binding|GTP binding|GTPase activity|protein binding				0	Breast(13;1.24e-05)		Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.00694)	GBM - Glioblastoma multiforme(7;0.000306)		TTGCATCATGCGTGAGTATAA	0.368													8	29					0	0	0.003080	0	0	
CPSF6	11052	broad.mit.edu	37	12	69651601	69651601	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:69651601C>T	uc001sut.3	+	5	720	c.610C>T	c.(610-612)CGG>TGG	p.R204W	CPSF6_uc001suu.3_Missense_Mutation_p.R204W|CPSF6_uc010stk.1_5'Flank	NM_007007	NP_008938	Q16630	CPSF6_HUMAN	cleavage and polyadenylation specific factor 6,	204					mRNA polyadenylation|protein tetramerization	mRNA cleavage factor complex|paraspeckles|ribonucleoprotein complex	mRNA binding|nucleotide binding|protein binding				0	all_epithelial(5;2.47e-36)|Lung NSC(4;1.1e-32)|all_lung(4;6.26e-31)|Breast(13;1.59e-06)|Esophageal squamous(21;0.187)		Epithelial(6;4.89e-17)|BRCA - Breast invasive adenocarcinoma(5;8.5e-10)|Lung(24;6.04e-05)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.0151)|LUSC - Lung squamous cell carcinoma(43;0.171)|Kidney(9;0.241)			TGGTAGAGGACGGGGCCGTTT	0.547													6	85					0	0	0.004482	0	0	
BEST3	144453	broad.mit.edu	37	12	70087555	70087555	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:70087555G>A	uc001svg.2	-	4	607	c.380C>T	c.(379-381)ACG>ATG	p.T127M	BEST3_uc001svd.1_Missense_Mutation_p.T127M|BEST3_uc001sve.1_RNA|BEST3_uc010stm.1_Missense_Mutation_p.T21M|BEST3_uc001svh.2_Translation_Start_Site|BEST3_uc001svi.1_RNA	NM_032735	NP_116124	Q8N1M1	BEST3_HUMAN	vitelliform macular dystrophy 2-like 3 isoform	127	Cytoplasmic (Potential).					chloride channel complex|plasma membrane	chloride channel activity				0	Breast(13;2.31e-06)|Esophageal squamous(21;0.187)		Lung(24;0.000278)|OV - Ovarian serous cystadenocarcinoma(12;0.0019)|STAD - Stomach adenocarcinoma(21;0.00694)			GCGCATCAGCGTCCTTCTAAG	0.532													13	31					0	0	0.004007	0	0	
CNOT2	4848	broad.mit.edu	37	12	70735907	70735907	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:70735907C>T	uc001svv.2	+	12	1778	c.1199C>T	c.(1198-1200)GCG>GTG	p.A400V	CNOT2_uc009zro.2_Missense_Mutation_p.A400V|CNOT2_uc009zrp.2_Missense_Mutation_p.A380V|CNOT2_uc009zrq.2_Missense_Mutation_p.A400V|CNOT2_uc001svw.1_Missense_Mutation_p.A140V	NM_014515	NP_055330	Q9NZN8	CNOT2_HUMAN	CCR4-NOT transcription complex, subunit 2	400					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription from RNA polymerase II promoter	cytosol|nucleus	protein binding|RNA polymerase II transcription cofactor activity				0	Renal(347;0.236)		GBM - Glioblastoma multiforme(1;4.77e-09)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00243)|STAD - Stomach adenocarcinoma(21;0.0118)			CCCAAATTTGCGTCACCCTGG	0.343													12	130					0	0	0.002450	0	0	
PTPRB	5787	broad.mit.edu	37	12	70964877	70964877	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:70964877C>T	uc001swb.3	-	11	2675	c.2645G>A	c.(2644-2646)CGC>CAC	p.R882H	PTPRB_uc010sto.1_Missense_Mutation_p.R882H|PTPRB_uc010stp.1_Missense_Mutation_p.R792H|PTPRB_uc001swc.3_Missense_Mutation_p.R1100H|PTPRB_uc001swa.3_Missense_Mutation_p.R1012H|PTPRB_uc001swd.3_Missense_Mutation_p.R1099H|PTPRB_uc009zrr.1_Missense_Mutation_p.R979H	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	882	Fibronectin type-III 10.|Extracellular (Potential).				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			TTTGTATTGGCGGCCTGGTGT	0.433													19	40					0	0	0.008871	0	0	
TSPAN8	7103	broad.mit.edu	37	12	71531970	71531970	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:71531970G>A	uc009zrt.1	-	4	464	c.302C>T	c.(301-303)GCG>GTG	p.A101V	TSPAN8_uc001swk.1_Missense_Mutation_p.A101V|TSPAN8_uc001swj.1_Missense_Mutation_p.A101V	NM_004616	NP_004607	P19075	TSN8_HUMAN	transmembrane 4 superfamily member 3	101	Helical; (Potential).				protein glycosylation	integral to membrane|lysosome	signal transducer activity			skin(2)|lung(1)|central_nervous_system(1)	4			LUSC - Lung squamous cell carcinoma(43;0.24)|OV - Ovarian serous cystadenocarcinoma(12;0.244)			GATACCTGTCGCCACCTGCAG	0.398													11	151					0	0	0.008291	0	0	
TPH2	121278	broad.mit.edu	37	12	72416230	72416230	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:72416230C>T	uc009zrw.1	+	9	1261	c.1120C>T	c.(1120-1122)CGG>TGG	p.R374W	TPH2_uc001swy.2_Missense_Mutation_p.R284W	NM_173353	NP_775489	Q8IWU9	TPH2_HUMAN	tryptophan hydroxylase 2	374					aromatic amino acid family metabolic process|hormone biosynthetic process|serotonin biosynthetic process	cytosol	amino acid binding|iron ion binding|tryptophan 5-monooxygenase activity			ovary(2)|central_nervous_system(1)|skin(1)	4					L-Tryptophan(DB00150)	AGGGCAACTGCGGGCATATGG	0.433													4	55					0	0	0.000602	0	0	
TRHDE	29953	broad.mit.edu	37	12	72863686	72863686	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:72863686T>C	uc001sxa.2	+	4	1359	c.1329T>C	c.(1327-1329)TGT>TGC	p.C443C		NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	443	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3						ATGAGATATGTCACCAGGTAT	0.338													15	49					0	0	0.004990	0	0	
CAPS2	84698	broad.mit.edu	37	12	75676076	75676076	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:75676076T>C	uc001sxk.3	-	17	1821	c.1624A>G	c.(1624-1626)ATA>GTA	p.I542V	CAPS2_uc001sxm.3_Missense_Mutation_p.I310V|CAPS2_uc009zsa.2_Missense_Mutation_p.I132V|CAPS2_uc001sxi.3_Missense_Mutation_p.I278V|CAPS2_uc001sxj.3_Missense_Mutation_p.I453V|CAPS2_uc001sxl.3_Missense_Mutation_p.I523V	NM_032606	NP_115995	Q9BXY5	CAYP2_HUMAN	calcyphosine 2	542	EF-hand 3.						calcium ion binding			ovary(2)	2						CATTTTCTTATGTTTATAATA	0.299													22	75					0	0	0.009535	0	0	
BBS10	79738	broad.mit.edu	37	12	76740999	76740999	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:76740999G>A	uc001syd.1	-	2	850	c.766C>T	c.(766-768)CGA>TGA	p.R256*		NM_024685	NP_078961	Q8TAM1	BBS10_HUMAN	Bardet-Biedl syndrome 10	256					cellular protein metabolic process|nonmotile primary cilium assembly|photoreceptor cell maintenance|response to stimulus|retina homeostasis	cilium	ATP binding			ovary(1)|skin(1)	2						ATCACCATTCGCATGTCACCA	0.423									Bardet-Biedl_syndrome				5	23					0	0	0.001168	0	0	
ZDHHC17	23390	broad.mit.edu	37	12	77244672	77244672	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:77244672C>T	uc001syk.1	+	17	1969	c.1806C>T	c.(1804-1806)TGC>TGT	p.C602C		NM_015336	NP_056151	Q8IUH5	ZDH17_HUMAN	huntingtin interacting protein 14	602	Cytoplasmic (Potential).				lipoprotein transport|positive regulation of I-kappaB kinase/NF-kappaB cascade	Golgi-associated vesicle membrane|integral to membrane	magnesium ion transmembrane transporter activity|protein binding|protein-cysteine S-palmitoleyltransferase activity|signal transducer activity|zinc ion binding				0						AATTTCGATGCTGTGGCCTCT	0.408													19	107					0	0	0.010504	0	0	
NAV3	89795	broad.mit.edu	37	12	78444840	78444840	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:78444840A>G	uc001syp.2	+	11	2602	c.2429A>G	c.(2428-2430)GAC>GGC	p.D810G	NAV3_uc001syo.2_Missense_Mutation_p.D810G|NAV3_uc010sub.1_Missense_Mutation_p.D310G	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	810						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						AGTGACCTGGACATGTCTTCT	0.488										HNSCC(70;0.22)			16	36					0	0	0.004007	0	0	
PPP1R12A	4659	broad.mit.edu	37	12	80211266	80211266	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:80211266C>T	uc001syz.2	-	9	1414	c.1147G>A	c.(1147-1149)GCC>ACC	p.A383T	PPP1R12A_uc010suc.1_Missense_Mutation_p.A296T|PPP1R12A_uc001sza.2_Missense_Mutation_p.A383T|PPP1R12A_uc010sud.1_Missense_Mutation_p.A383T|PPP1R12A_uc001szb.2_Missense_Mutation_p.A383T|PPP1R12A_uc001szc.2_Missense_Mutation_p.A383T	NM_002480	NP_002471	O14974	MYPT1_HUMAN	protein phosphatase 1, regulatory (inhibitor)	383						contractile fiber	protein binding|signal transducer activity			ovary(2)|breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	7						GAAGTGTTGGCATTAGTTACA	0.388													4	26					0	0	0.009096	0	0	
ACSS3	79611	broad.mit.edu	37	12	81610701	81610701	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:81610701C>T	uc001szl.1	+	10	1467	c.1376C>T	c.(1375-1377)GCG>GTG	p.A459V	ACSS3_uc001szm.1_Missense_Mutation_p.A458V|ACSS3_uc001szn.1_Missense_Mutation_p.A141V	NM_024560	NP_078836	Q9H6R3	ACSS3_HUMAN	acyl-CoA synthetase short-chain family member 3	459						mitochondrion	acetate-CoA ligase activity|ATP binding			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4						CCAATTACTGCGTCATGTGTT	0.398													20	69					0	0	0.002299	0	0	
C12orf26	84190	broad.mit.edu	37	12	82870436	82870436	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:82870436T>A	uc001szq.2	+	10	1607	c.1586T>A	c.(1585-1587)ATT>AAT	p.I529N		NM_032230	NP_115606	Q8N6Q8	CL026_HUMAN	hypothetical protein LOC84190	529											0						CCAGAAAAAATTATAATGAAC	0.274													20	34					0	0	0.002299	0	0	
TMTC3	160418	broad.mit.edu	37	12	88547228	88547228	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:88547228A>G	uc001tau.2	+	3	570	c.350A>G	c.(349-351)AAC>AGC	p.N117S	TMTC3_uc009zsm.2_RNA	NM_181783	NP_861448	Q6ZXV5	TMTC3_HUMAN	transmembrane and tetratricopeptide repeat	117						integral to membrane	binding			skin(1)	1						TTTCTGGACAACAAGAGTAGT	0.323													11	49					0	0	0.001368	0	0	
KITLG	4254	broad.mit.edu	37	12	88910187	88910187	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:88910187A>G	uc001tav.2	-	5	627	c.444T>C	c.(442-444)ATT>ATC	p.I148I	KITLG_uc009zsn.2_Intron|KITLG_uc001taw.2_Silent_p.I148I|KITLG_uc009zso.1_Intron	NM_000899	NP_000890	P21583	SCF_HUMAN	KIT ligand isoform b precursor	148	Extracellular (Potential).				cell adhesion|cell proliferation|hemopoiesis|male gonad development|positive regulation of DNA replication|signal transduction	cytoplasm|cytoskeleton|integral to membrane|plasma membrane	growth factor activity|identical protein binding|stem cell factor receptor binding			ovary(1)	1						TGAAGGCATCAATGGATCTAT	0.358									Testicular_Cancer_Familial_Clustering_of				7	122					0	0	0.001984	0	0	
ATP2B1	490	broad.mit.edu	37	12	89992941	89992941	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:89992941G>A	uc001tbh.2	-	19	3485	c.3304C>T	c.(3304-3306)CGT>TGT	p.R1102C	ATP2B1_uc001tbg.2_Missense_Mutation_p.R1102C|ATP2B1_uc009zsr.2_RNA|ATP2B1_uc001tbf.2_Missense_Mutation_p.R736C	NM_001682	NP_001673	P20020	AT2B1_HUMAN	plasma membrane calcium ATPase 1 isoform 1b	1102	Cytoplasmic (Potential).|Calmodulin-binding subdomain A.				ATP biosynthetic process|platelet activation	integral to plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3						ATTTGGCCACGCCGCAACTCC	0.483													28	66					0	0	0.008361	0	0	
LUM	4060	broad.mit.edu	37	12	91498015	91498015	+	Missense_Mutation	SNP	C	T	T	rs139919924		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:91498015C>T	uc001tbm.2	-	3	1333	c.944G>A	c.(943-945)CGC>CAC	p.R315H	LUM_uc001tbn.2_RNA	NM_002345	NP_002336	P51884	LUM_HUMAN	lumican precursor	315	LRR 11.				collagen fibril organization|visual perception	extracellular space|fibrillar collagen	collagen binding|extracellular matrix structural constituent			central_nervous_system(2)	2						TTCTGAGATGCGATTGCCATC	0.378													14	52					0	0	0.002450	0	0	
CLLU1OS	574016	broad.mit.edu	37	12	92814871	92814871	+	Missense_Mutation	SNP	G	A	A	rs147336226		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:92814871G>A	uc001tcb.1	-	3	223	c.221C>T	c.(220-222)GCG>GTG	p.A74V	CLLU1_uc001tcc.2_5'Flank|CLLU1_uc001tcd.2_5'Flank|CLLU1_uc001tce.1_5'Flank|CLLU1_uc001tcf.2_5'Flank	NM_001025232	NP_001020403	Q5K130	CLU1O_HUMAN	chronic lymphocytic leukemia up-regulated 1	74											0						TCCTTTGCCCGCTCTCACATA	0.428													44	166					0	0	0.009718	0	0	
C12orf74	338809	broad.mit.edu	37	12	93100872	93100872	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:93100872C>T	uc001tch.1	+	2	695	c.465C>T	c.(463-465)GGC>GGT	p.G155G	C12orf74_uc001tci.2_Silent_p.G155G	NM_001037671	NP_001032760	Q32Q52	CL074_HUMAN	hypothetical protein LOC338809	155											0						AGCAAGAAGGCCACTTCCTGC	0.572													10	18					0	0	0.000978	0	0	
EEA1	8411	broad.mit.edu	37	12	93236266	93236266	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:93236266A>C	uc001tck.2	-	10	1155	c.890T>G	c.(889-891)GTT>GGT	p.V297G		NM_003566	NP_003557	Q15075	EEA1_HUMAN	early endosome antigen 1, 162kD	297	Potential.				early endosome to late endosome transport|synaptic vesicle to endosome fusion|vesicle fusion	cytosol|early endosome membrane|extrinsic to plasma membrane|membrane fraction	1-phosphatidylinositol binding|calmodulin binding|GTP-dependent protein binding|protein homodimerization activity|zinc ion binding			ovary(2)|skin(1)	3						TAATTCATTAACTGAACTTTT	0.294													3	26					0	0	0.009096	0	0	
TMCC3	57458	broad.mit.edu	37	12	94972205	94972205	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:94972205C>T	uc001tdj.2	-	3	1214	c.1096G>A	c.(1096-1098)GCC>ACC	p.A366T	TMCC3_uc001tdi.2_Missense_Mutation_p.A335T	NM_020698	NP_065749	Q9ULS5	TMCC3_HUMAN	transmembrane and coiled-coil domain family 3	366	Potential.					integral to membrane				ovary(1)|skin(1)	2						GCCTGGTAGGCCACCTTCTCC	0.562													9	51					0	0	0.008291	0	0	
HAL	3034	broad.mit.edu	37	12	96380970	96380970	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:96380970G>A	uc001tem.1	-	12	1223	c.926C>T	c.(925-927)ACG>ATG	p.T309M	HAL_uc009zti.1_RNA|HAL_uc010suw.1_Missense_Mutation_p.T101M|HAL_uc010sux.1_Missense_Mutation_p.T309M	NM_002108	NP_002099	P42357	HUTH_HUMAN	histidine ammonia-lyase	309					biosynthetic process|histidine catabolic process	cytosol	histidine ammonia-lyase activity			ovary(2)|skin(1)	3					L-Histidine(DB00117)	GATCATCTGCGTCCCATTGAT	0.527													20	67					0	0	0.002780	0	0	
LTA4H	4048	broad.mit.edu	37	12	96409440	96409440	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:96409440C>T	uc001ten.1	-	11	1048	c.980G>A	c.(979-981)CGC>CAC	p.R327H	LTA4H_uc010suy.1_Missense_Mutation_p.R289H|LTA4H_uc010suz.1_Missense_Mutation_p.R289H|LTA4H_uc010sva.1_RNA|LTA4H_uc009ztj.2_5'Flank	NM_000895	NP_000886	P09960	LKHA4_HUMAN	leukotriene A4 hydrolase	327					hormone biosynthetic process|inflammatory response|leukotriene biosynthetic process|peptide catabolic process|prostanoid metabolic process|proteolysis	cytosol|nucleus	aminopeptidase activity|epoxide hydrolase activity|leukotriene-A4 hydrolase activity|metallopeptidase activity|protein binding|zinc ion binding			haematopoietic_and_lymphoid_tissue(1)	1						GCAAATGTGGCGTTCCAAGTA	0.363											OREG0022040	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	82					0	0	0.001168	0	0	
ELK3	2004	broad.mit.edu	37	12	96640801	96640801	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:96640801G>A	uc001teo.1	+	3	570	c.291G>A	c.(289-291)GCG>GCA	p.A97A		NM_005230	NP_005221	P41970	ELK3_HUMAN	ELK3 protein	97					negative regulation of transcription, DNA-dependent|signal transduction	mitochondrion	protein binding|purine-rich negative regulatory element binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	all_cancers(2;0.00173)					ATCCTCACGCGGTGGAGATCA	0.562													8	26					0	0	0.006214	0	0	
C12orf63	374467	broad.mit.edu	37	12	97051724	97051724	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:97051724G>A	uc001tet.1	+	4	518	c.440G>A	c.(439-441)GGT>GAT	p.G147D		NM_198520	NP_940922	Q6ZTY8	CL063_HUMAN	hypothetical protein LOC374467	147										skin(6)|ovary(1)	7						AATGACAACGGTGGTTCTAGT	0.343													11	169					0	0	0.000978	0	0	
APAF1	317	broad.mit.edu	37	12	99053038	99053038	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:99053038T>C	uc001tfz.2	+	5	1204	c.627T>C	c.(625-627)GAT>GAC	p.D209D	APAF1_uc001tfy.2_Silent_p.D198D|APAF1_uc001tga.2_Silent_p.D198D|APAF1_uc001tgb.2_Silent_p.D209D|APAF1_uc001tgc.2_Silent_p.D209D	NM_181861	NP_863651	O14727	APAF_HUMAN	apoptotic peptidase activating factor 1 isoform	209	NB-ARC.				activation of caspase activity by cytochrome c|defense response|induction of apoptosis by intracellular signals|nervous system development	cytosol|Golgi apparatus|nucleus	ATP binding|caspase activator activity|protein binding			ovary(2)|lung(1)	3					Adenosine triphosphate(DB00171)	TGGATCAGGATGAGAGTTTTT	0.468													5	101					0	0	0.000602	0	0	
UHRF1BP1L	23074	broad.mit.edu	37	12	100482858	100482858	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:100482858C>T	uc001tgq.2	-	8	1085	c.856G>A	c.(856-858)GCA>ACA	p.A286T	UHRF1BP1L_uc001tgr.2_Missense_Mutation_p.A286T|UHRF1BP1L_uc001tgp.2_5'UTR	NM_015054	NP_055869	A0JNW5	UH1BL_HUMAN	UHRF1 (ICBP90) binding protein 1-like isoform a	286										ovary(2)	2						TGGGCAGATGCGACTACTGTA	0.358													5	79					0	0	0.000602	0	0	
GAS2L3	283431	broad.mit.edu	37	12	101018596	101018596	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:101018596A>T	uc001thu.2	+	10	2239	c.2013A>T	c.(2011-2013)AAA>AAT	p.K671N	GAS2L3_uc009zty.2_Missense_Mutation_p.K671N|GAS2L3_uc001thv.2_Missense_Mutation_p.K567N	NM_174942	NP_777602	Q86XJ1	GA2L3_HUMAN	growth arrest-specific 2 like 3	671					cell cycle arrest					skin(1)	1						GAGATAAAAAACCTACTGCAA	0.378													30	60					0	0	0.009535	0	0	
SLC5A8	160728	broad.mit.edu	37	12	101588918	101588918	+	Silent	SNP	G	A	A	rs143104107		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:101588918G>A	uc001thz.3	-	4	882	c.492C>T	c.(490-492)GGC>GGT	p.G164G		NM_145913	NP_666018	Q8N695	SC5A8_HUMAN	solute carrier family 5 (iodide transporter),	164	Helical; (Potential).				apoptosis|sodium ion transport	apical plasma membrane|integral to membrane	monocarboxylic acid transmembrane transporter activity|passive transmembrane transporter activity|symporter activity				0						CCACTACCGCGCCCCACAGAT	0.408													8	25					0	0	0.004482	0	0	
UTP20	27340	broad.mit.edu	37	12	101720944	101720944	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:101720944C>T	uc001tia.1	+	26	3283	c.3127C>T	c.(3127-3129)CGG>TGG	p.R1043W		NM_014503	NP_055318	O75691	UTP20_HUMAN	down-regulated in metastasis	1043					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|negative regulation of cell proliferation	90S preribosome|cytoplasm|nucleolus|nucleoplasm|preribosome, small subunit precursor|small-subunit processome	protein binding			ovary(2)|breast(2)	4						CATTGTCCTGCGGTTCCTGGC	0.478													12	108					0	0	0.001855	0	0	
MYBPC1	4604	broad.mit.edu	37	12	102025861	102025861	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:102025861C>T	uc001tii.2	+	6	528	c.426C>T	c.(424-426)TGC>TGT	p.C142C	MYBPC1_uc001tif.1_Silent_p.C155C|MYBPC1_uc001tig.2_Silent_p.C167C|MYBPC1_uc010svq.1_Silent_p.C129C|MYBPC1_uc001tih.2_Silent_p.C167C|MYBPC1_uc001tij.2_Silent_p.C142C|MYBPC1_uc010svr.1_Silent_p.C142C|MYBPC1_uc010svs.1_Silent_p.C142C|MYBPC1_uc010svt.1_Silent_p.C130C|MYBPC1_uc010svu.1_Silent_p.C142C|MYBPC1_uc001tik.2_Silent_p.C116C	NM_206820	NP_996556	Q00872	MYPC1_HUMAN	myosin binding protein C, slow type isoform 3	142	Ig-like C2-type 1.				cell adhesion|muscle filament sliding	cytosol|myofibril|myosin filament	actin binding|structural constituent of muscle|titin binding			ovary(2)|liver(1)|skin(1)	4						ATTACAGATGCGAGGTCACCT	0.393													5	100					0	0	0.000602	0	0	
C12orf42	374470	broad.mit.edu	37	12	103699756	103699756	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:103699756A>T	uc001tjt.2	-	5	715	c.627T>A	c.(625-627)AAT>AAA	p.N209K	C12orf42_uc001tjs.2_Intron|C12orf42_uc009zuf.1_Missense_Mutation_p.N209K|C12orf42_uc001tju.2_Missense_Mutation_p.N114K	NM_198521	NP_940923	Q96LP6	CL042_HUMAN	hypothetical protein LOC374470	209										ovary(1)|central_nervous_system(1)	2						ACTTACCAGAATTTTTCTTGG	0.418													54	155					0	0	0.003610	0	0	
C12orf42	374470	broad.mit.edu	37	12	103872137	103872137	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:103872137T>A	uc001tjt.2	-	2	156	c.68A>T	c.(67-69)AAC>ATC	p.N23I	C12orf42_uc001tjs.2_RNA|C12orf42_uc009zuf.1_Missense_Mutation_p.N23I|C12orf42_uc001tju.2_5'UTR	NM_198521	NP_940923	Q96LP6	CL042_HUMAN	hypothetical protein LOC374470	23										ovary(1)|central_nervous_system(1)	2						CTGCATCCTGTTTGCAAAAGG	0.333													3	20					0	0	0.004672	0	0	
STAB2	55576	broad.mit.edu	37	12	104136204	104136204	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:104136204C>T	uc001tjw.2	+	56	6089	c.5903C>T	c.(5902-5904)GCC>GTC	p.A1968V	STAB2_uc009zug.2_RNA	NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	1968	Extracellular (Potential).|Laminin EGF-like 2.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						GGACCAGATGCCCCGTGTAAT	0.557													17	53					0	0	0.007413	0	0	
HSP90B1	7184	broad.mit.edu	37	12	104335416	104335416	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:104335416C>T	uc001tkb.1	+	10	1345	c.1240C>T	c.(1240-1242)CGC>TGC	p.R414C	HSP90B1_uc010swg.1_Missense_Mutation_p.R79C|HSP90B1_uc009zui.1_Intron	NM_003299	NP_003290	P14625	ENPL_HUMAN	heat shock protein 90kDa beta, member 1	414					actin rod assembly|anti-apoptosis|cellular response to ATP|ER-associated protein catabolic process|protein folding|protein transport|regulation of phosphoprotein phosphatase activity|response to hypoxia|sequestering of calcium ion	cytosol|endoplasmic reticulum lumen|endoplasmic reticulum membrane|melanosome|microsome|midbody|perinuclear region of cytoplasm	ATP binding|calcium ion binding|low-density lipoprotein particle receptor binding|protein phosphatase binding|RNA binding|unfolded protein binding|virion binding			ovary(2)|skin(1)	3					Rifabutin(DB00615)	GCTCTATGTGCGCCGTGTATT	0.368													6	59					0	0	0.001168	0	0	
TXNRD1	7296	broad.mit.edu	37	12	104682747	104682747	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:104682747G>T	uc010swk.1	+	4	365	c.343G>T	c.(343-345)GCC>TCC	p.A115S	TXNRD1_uc010swl.1_5'UTR|TXNRD1_uc010swm.1_Missense_Mutation_p.A17S|TXNRD1_uc010swn.1_Intron|TXNRD1_uc010swo.1_Intron|TXNRD1_uc010swp.1_5'UTR|TXNRD1_uc010swq.1_Missense_Mutation_p.A15S|TXNRD1_uc001tku.2_RNA|TXNRD1_uc001tko.1_RNA|TXNRD1_uc001tkp.1_Intron|TXNRD1_uc001tkv.1_5'Flank	NM_001093771	NP_001087240	Q16881	TRXR1_HUMAN	thioredoxin reductase 1 isoform 3	115	Glutaredoxin.				cell redox homeostasis|cellular lipid metabolic process|electron transport chain|nucleobase, nucleoside and nucleotide interconversion|signal transduction|transport	cytosol|nucleolus	electron carrier activity|flavin adenine dinucleotide binding|NADP binding|protein disulfide oxidoreductase activity|thioredoxin-disulfide reductase activity				0						CTCGGAATTGGCCGCGGAAAC	0.547													35	85					5.71845e-15	6.2226e-15	0.005524	1	0	
KIAA1033	23325	broad.mit.edu	37	12	105531765	105531765	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:105531765G>C	uc001tld.2	+	15	1515	c.1428G>C	c.(1426-1428)TTG>TTC	p.L476F	KIAA1033_uc010swr.1_Missense_Mutation_p.L477F|KIAA1033_uc010sws.1_Missense_Mutation_p.L288F	NM_015275	NP_056090	Q2M389	WAHS7_HUMAN	hypothetical protein LOC23325	476					endosome transport	WASH complex				kidney(1)|central_nervous_system(1)	2						TTAAGGCATTGTGCAGGCTTG	0.358													18	39					0	0	0.007413	0	0	
WSCD2	9671	broad.mit.edu	37	12	108634152	108634152	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:108634152C>T	uc001tms.2	+	8	1920	c.1176C>T	c.(1174-1176)AGC>AGT	p.S392S	WSCD2_uc001tmt.2_Silent_p.S392S|WSCD2_uc001tmu.2_Silent_p.S140S	NM_014653	NP_055468	Q2TBF2	WSCD2_HUMAN	WSC domain containing 2	392						integral to membrane				ovary(1)|large_intestine(1)|breast(1)	3						ACTGGCGCAGCGGACGGACCA	0.607													5	104					0	0	0.000602	0	0	
FICD	11153	broad.mit.edu	37	12	108912521	108912521	+	Missense_Mutation	SNP	C	T	T	rs151147125		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:108912521C>T	uc001tmx.1	+	3	792	c.646C>T	c.(646-648)CGC>TGC	p.R216C		NM_007076	NP_009007	Q9BVA6	FICD_HUMAN	Huntingtin interacting protein E	216					negative regulation of Rho GTPase activity	integral to membrane	binding|protein adenylyltransferase activity				0						CTCAGCTCTGCGCAGGGTCAT	0.542													9	49					0	0	0.006214	0	0	
FICD	11153	broad.mit.edu	37	12	108913112	108913112	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:108913112C>T	uc001tmx.1	+	3	1383	c.1237C>T	c.(1237-1239)CCT>TCT	p.P413S		NM_007076	NP_009007	Q9BVA6	FICD_HUMAN	Huntingtin interacting protein E	413	Fido.				negative regulation of Rho GTPase activity	integral to membrane	binding|protein adenylyltransferase activity				0						CGACGTGAGGCCTTTCATTCG	0.592													16	31					0	0	0.004990	0	0	
SELPLG	6404	broad.mit.edu	37	12	109017688	109017688	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:109017688C>A	uc001tni.2	-	2	556	c.396G>T	c.(394-396)CAG>CAT	p.Q132H	SELPLG_uc001tnh.2_Intron|SELPLG_uc010sxe.1_Missense_Mutation_p.Q148H	NM_003006	NP_002997	Q14242	SELPL_HUMAN	selectin P ligand	132	2.|Extracellular (Potential).|12 X 10 AA tandem repeats.				blood coagulation|cellular response to interleukin-6	integral to plasma membrane|membrane fraction	bacterial cell surface binding|receptor binding				0						GTTGAGTGGTCTGTGCCTCCG	0.607													4	47					5.9392e-07	6.31025e-07	0.001168	1	0	
SELPLG	6404	broad.mit.edu	37	12	109017769	109017769	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:109017769C>A	uc001tni.2	-	2	475	c.315G>T	c.(313-315)GAG>GAT	p.E105D	SELPLG_uc001tnh.2_Missense_Mutation_p.E105D|SELPLG_uc010sxe.1_Missense_Mutation_p.E121D	NM_003006	NP_002997	Q14242	SELPL_HUMAN	selectin P ligand	105	Extracellular (Potential).				blood coagulation|cellular response to interleukin-6	integral to plasma membrane|membrane fraction	bacterial cell surface binding|receptor binding				0						TGTTGGCCAGCTCCGTGGTCA	0.602													11	35					0.00010058	0.000105469	0.001368	1	0	
ACACB	32	broad.mit.edu	37	12	109577464	109577464	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:109577464C>T	uc001tob.2	+	2	373	c.254C>T	c.(253-255)GCC>GTC	p.A85V	ACACB_uc001toc.2_Missense_Mutation_p.A85V	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	85					acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	CCCAAAGATGCCGGTCGGCGG	0.622													19	39					0	0	0.004656	0	0	
ACACB	32	broad.mit.edu	37	12	109639432	109639432	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:109639432C>T	uc001tob.2	+	19	2958	c.2839C>T	c.(2839-2841)CGT>TGT	p.R947C	ACACB_uc001toc.2_Missense_Mutation_p.R947C	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	947	Biotinyl-binding.				acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	GTACATCAAGCGTCCAGGTGC	0.552													23	50					0	0	0.004656	0	0	
ACACB	32	broad.mit.edu	37	12	109687849	109687849	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:109687849C>T	uc001tob.2	+	41	5849	c.5730C>T	c.(5728-5730)GGC>GGT	p.G1910G	ACACB_uc001toc.2_Silent_p.G1910G|ACACB_uc010sxl.1_RNA|ACACB_uc001tod.2_RNA|ACACB_uc010sxm.1_Silent_p.G576G	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	1910	Carboxyltransferase.				acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	ATCTGAGGGGCTCAGGCATGA	0.483													18	55					0	0	0.007413	0	0	
KCTD10	83892	broad.mit.edu	37	12	109898545	109898545	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:109898545C>T	uc001toi.1	-	3	371	c.283G>A	c.(283-285)GCG>ACG	p.A95T	KCTD10_uc001toh.1_5'Flank|KCTD10_uc009zvi.1_Missense_Mutation_p.A92T|KCTD10_uc001toj.1_Missense_Mutation_p.A103T|KCTD10_uc001tok.1_Intron	NM_031954	NP_114160	Q9H3F6	BACD3_HUMAN	potassium channel tetramerisation domain	95	BTB.				proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination	Cul3-RING ubiquitin ligase complex|cytoplasm|nucleus|voltage-gated potassium channel complex	voltage-gated potassium channel activity				0						AAAGGCACCGCCCCGTCTCGA	0.607													11	25					0	0	0.000978	0	0	
UBE3B	89910	broad.mit.edu	37	12	109962256	109962256	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:109962256A>G	uc001top.2	+	23	3119	c.2516A>G	c.(2515-2517)GAC>GGC	p.D839G	UBE3B_uc001toq.2_Missense_Mutation_p.D839G|UBE3B_uc001tos.2_Missense_Mutation_p.D266G|UBE3B_uc001too.1_RNA|UBE3B_uc009zvj.1_Missense_Mutation_p.D839G	NM_130466	NP_569733	Q7Z3V4	UBE3B_HUMAN	ubiquitin protein ligase E3B	839	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	ubiquitin-protein ligase activity			ovary(2)|lung(2)	4						TATGATGGGGACATCACTGAC	0.562													4	50					0	0	0.000602	0	0	
MVK	4598	broad.mit.edu	37	12	110019211	110019211	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:110019211G>A	uc001toy.3	+	5	567	c.383G>A	c.(382-384)AGC>AAC	p.S128N	MVK_uc009zvk.2_Missense_Mutation_p.S128N|MVK_uc010sxr.1_Intron|MVK_uc001toz.3_Intron|MVK_uc001tpc.3_RNA	NM_001114185	NP_001107657	Q03426	KIME_HUMAN	mevalonate kinase	128					cholesterol biosynthetic process|isoprenoid biosynthetic process	cytosol|peroxisome	ATP binding|identical protein binding|mevalonate kinase activity				0						GCCCTGCCGAGCCTGGATATC	0.682													14	35					0	0	0.007413	0	0	
TRPV4	59341	broad.mit.edu	37	12	110240894	110240894	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:110240894C>T	uc001tpj.1	-	3	709	c.614G>A	c.(613-615)GGC>GAC	p.G205D	TRPV4_uc001tpg.1_Missense_Mutation_p.G171D|TRPV4_uc001tph.1_Missense_Mutation_p.G205D|TRPV4_uc001tpi.1_Missense_Mutation_p.G205D|TRPV4_uc001tpk.1_Missense_Mutation_p.G205D|TRPV4_uc001tpl.1_Missense_Mutation_p.G205D	NM_021625	NP_067638	Q9HBA0	TRPV4_HUMAN	transient receptor potential cation channel,	205	Cytoplasmic (Potential).				actin cytoskeleton reorganization|actin filament organization|calcium ion import|cell death|cell volume homeostasis|cell-cell junction assembly|cellular hypotonic response|cortical microtubule organization|elevation of cytosolic calcium ion concentration|microtubule polymerization|negative regulation of neuron projection development|osmosensory signaling pathway|positive regulation of microtubule depolymerization|response to mechanical stimulus	cortical actin cytoskeleton|filopodium|focal adhesion|growth cone|integral to membrane|lamellipodium|ruffle membrane	actin filament binding|alpha-tubulin binding|beta-tubulin binding|calcium channel activity|calmodulin binding|microtubule binding|protein binding|protein kinase C binding|SH2 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						GTCGTTGCGGCCATTGCTCAG	0.577													8	31					0	0	0.003080	0	0	
TCHP	84260	broad.mit.edu	37	12	110350854	110350854	+	Missense_Mutation	SNP	G	A	A	rs147052884	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:110350854G>A	uc001tpn.2	+	10	1264	c.1111G>A	c.(1111-1113)GCA>ACA	p.A371T	TCHP_uc001tpo.1_RNA|TCHP_uc001tpp.2_Missense_Mutation_p.A371T	NM_001143852	NP_001137324	Q9BT92	TCHP_HUMAN	trichoplein	371	Trichohyalin/plectin homology domain.|Glu-rich.|Interaction with keratin proteins.				apoptosis|negative regulation of cell growth	apical cortex|centrosome|keratin filament|mitochondrion|plasma membrane	protein binding			skin(1)	1						AGAGCGCAGCGCACGGGACAG	0.622													4	26					0	0	0.001168	0	0	
GPN3	51184	broad.mit.edu	37	12	110906005	110906005	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:110906005G>A	uc001tqr.2	-	1	60	c.4C>T	c.(4-6)CCT>TCT	p.P2S	GPN3_uc001tqs.2_Missense_Mutation_p.P2S|C12orf24_uc010sxz.1_5'Flank|C12orf24_uc009zvo.2_5'Flank|C12orf24_uc001tqt.2_5'Flank|C12orf24_uc001tqu.3_5'Flank|C12orf24_uc001tqv.3_5'Flank	NM_016301	NP_057385	Q9UHW5	GPN3_HUMAN	GPN-loop GTPase 3 isoform 1	2						protein complex	GTP binding				0						GCATACCGAGGCATGTTGGCT	0.627													11	18					0	0	0.000978	0	0	
PPP1CC	5501	broad.mit.edu	37	12	111169698	111169698	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:111169698A>G	uc001tru.2	-	2	309	c.64T>C	c.(64-66)TCC>CCC	p.S22P		NM_002710	NP_002701	P36873	PP1G_HUMAN	protein phosphatase 1, catalytic subunit, gamma	22					cell division|glycogen metabolic process|mitotic prometaphase|triglyceride catabolic process	cleavage furrow|condensed chromosome kinetochore|cytosol|midbody|MLL5-L complex|nuclear speck|nucleolus|PTW/PP1 phosphatase complex	metal ion binding|protein binding|protein kinase binding|protein serine/threonine phosphatase activity			lung(2)|central_nervous_system(1)	3						CCAGGCTTGGACCCTCTCACT	0.393													7	100					0	0	0.001984	0	0	
ATXN2	6311	broad.mit.edu	37	12	111895132	111895132	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:111895132C>T	uc001tsj.2	-	22	3564	c.3402G>A	c.(3400-3402)GCG>GCA	p.A1134A	ATXN2_uc001tsh.2_Silent_p.A869A|ATXN2_uc001tsi.2_Silent_p.A827A|ATXN2_uc001tsk.2_RNA|ATXN2_uc001tsg.2_Silent_p.A322A|ATXN2_uc001tsl.1_Silent_p.A135A	NM_002973	NP_002964	Q99700	ATX2_HUMAN	ataxin 2	1134					cell death|cytoplasmic mRNA processing body assembly|regulation of translation|RNA metabolic process|RNA transport|stress granule assembly	nucleus|perinuclear region of cytoplasm|polysome|stress granule|trans-Golgi network	protein C-terminus binding|RNA binding			ovary(1)|breast(1)	2						CGTTAGGGTGCGCATACTGCT	0.537													7	68					0	0	0.003080	0	0	
NAA25	80018	broad.mit.edu	37	12	112513574	112513574	+	Silent	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:112513574A>T	uc001ttm.2	-	8	704	c.684T>A	c.(682-684)ATT>ATA	p.I228I	NAA25_uc001ttn.3_RNA|NAA25_uc009zvz.1_Silent_p.I200I|NAA25_uc009zwa.1_Silent_p.I228I	NM_024953	NP_079229	Q14CX7	NAA25_HUMAN	mitochondrial distribution and morphology 20	228						cytoplasm	protein binding			ovary(1)|breast(1)|pancreas(1)	3						CCCGACTCTGAATCTCACTTG	0.413													14	36					0	0	0.004990	0	0	
TRAFD1	10906	broad.mit.edu	37	12	112589844	112589844	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:112589844G>A	uc001ttp.2	+	10	1605	c.1519G>A	c.(1519-1521)GCC>ACC	p.A507T	TRAFD1_uc001tto.2_Missense_Mutation_p.A507T	NM_006700	NP_006691	O14545	TRAD1_HUMAN	TRAF-type zinc finger domain containing 1	507					negative regulation of innate immune response	intracellular	protein binding|zinc ion binding				0						TGGGGCCATAGCCCCTGGGCA	0.582													43	108					0	0	0.003610	0	0	
C12orf51	283450	broad.mit.edu	37	12	112632704	112632704	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:112632704C>T	uc009zwc.2	-	49	7486	c.7468G>A	c.(7468-7470)GCA>ACA	p.A2490T		NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						AGAGGAGGTGCGAGGAGCTGA	0.582													7	15					0	0	0.001984	0	0	
C12orf51	283450	broad.mit.edu	37	12	112657288	112657288	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:112657288G>A	uc009zwc.2	-	38	5728	c.5710C>T	c.(5710-5712)CGA>TGA	p.R1904*	C12orf51_uc001ttr.1_Nonsense_Mutation_p.R79*	NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						ACTGCAAGTCGCTCTCCTGTA	0.532													7	12					0	0	0.004482	0	0	
C12orf51	283450	broad.mit.edu	37	12	112721041	112721041	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:112721041G>A	uc009zwc.2	-	2	237	c.219C>T	c.(217-219)GGC>GGT	p.G73G		NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						TGGCAGATTCGCCCTCTTTTC	0.428													5	45					0	0	0.000602	0	0	
DTX1	1840	broad.mit.edu	37	12	113515327	113515327	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:113515327G>T	uc001tuk.1	+	2	694	c.358G>T	c.(358-360)GCC>TCC	p.A120S		NM_004416	NP_004407	Q86Y01	DTX1_HUMAN	deltex homolog 1	120	WWE 2.				negative regulation of neuron differentiation|Notch signaling pathway|regulation of Notch signaling pathway|transcription from RNA polymerase II promoter	cytoplasm|nucleus	Notch binding|SH3 domain binding|transcription coactivator activity|ubiquitin protein ligase binding|zinc ion binding			lung(2)|ovary(1)|central_nervous_system(1)	4						CGCATGGACGGCCTACGATAT	0.627													8	12					0.00448238	0.00465074	0.004482	1	0	
RASAL1	8437	broad.mit.edu	37	12	113545988	113545988	+	Nonsense_Mutation	SNP	G	A	A	rs145374624		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:113545988G>A	uc001tum.1	-	15	1707	c.1414C>T	c.(1414-1416)CGA>TGA	p.R472*	RASAL1_uc010syp.1_Nonsense_Mutation_p.R472*|RASAL1_uc001tul.2_Nonsense_Mutation_p.R472*|RASAL1_uc001tun.1_Nonsense_Mutation_p.R473*|RASAL1_uc010syq.1_Nonsense_Mutation_p.R472*|RASAL1_uc001tuo.3_Nonsense_Mutation_p.R472*|RASAL1_uc010syr.1_Nonsense_Mutation_p.R472*	NM_004658	NP_004649	O95294	RASL1_HUMAN	RAS protein activator like 1	472	Ras-GAP.				intracellular signal transduction|negative regulation of Ras protein signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	metal ion binding|phospholipid binding|Ras GTPase activator activity			ovary(2)|skin(2)	4						GCGAAGAATCGCAAGAAGAGA	0.557													7	19					0	0	0.001984	0	0	
DDX54	79039	broad.mit.edu	37	12	113612541	113612541	+	Silent	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:113612541A>T	uc001tup.2	-	10	1000	c.972T>A	c.(970-972)GCT>GCA	p.A324A	DDX54_uc001tuq.3_Silent_p.A324A	NM_024072	NP_076977	Q8TDD1	DDX54_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 54	324					estrogen receptor signaling pathway|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nucleolus	ATP binding|ATP-dependent RNA helicase activity|estrogen receptor binding|RNA binding|transcription corepressor activity			skin(2)|central_nervous_system(1)	3						GCAGCACGGCAGCCTTGGTGT	0.657											OREG0022139	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	17					0	0	0.003080	0	0	
PLBD2	196463	broad.mit.edu	37	12	113822727	113822727	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:113822727T>C	uc001tve.2	+	8	1225	c.1190T>C	c.(1189-1191)GTG>GCG	p.V397A	PLBD2_uc001tvf.2_Intron	NM_173542	NP_775813	Q8NHP8	PLBL2_HUMAN	phospholipase B domain containing 2 isoform 1	397					lipid catabolic process	lysosomal lumen	hydrolase activity				0						GGGAGCCGGGTGCTTACCATC	0.672													4	9					0	0	0.003080	0	0	
SDS	10993	broad.mit.edu	37	12	113830802	113830802	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:113830802C>T	uc001tvg.2	-	8	1053	c.931G>A	c.(931-933)GCC>ACC	p.A311T		NM_006843	NP_006834	P20132	SDHL_HUMAN	serine dehydratase	311					gluconeogenesis|L-serine catabolic process|pyruvate biosynthetic process	cytoplasm	L-serine ammonia-lyase activity|L-threonine ammonia-lyase activity|protein homodimerization activity|pyridoxal phosphate binding			pancreas(1)	1					L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)	CGCAGCTGGGCCAGGCTGATG	0.607													32	65					0	0	0.008740	0	0	
FBXO21	23014	broad.mit.edu	37	12	117604880	117604880	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:117604880G>A	uc001twk.2	-	8	1055	c.1016C>T	c.(1015-1017)GCG>GTG	p.A339V	FBXO21_uc001twj.2_Missense_Mutation_p.A339V|FBXO21_uc009zwq.2_Intron|FBXO21_uc001twl.1_5'UTR	NM_033624	NP_296373	O94952	FBX21_HUMAN	F-box only protein 21 isoform 1	339					ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	ubiquitin-protein ligase activity			kidney(1)	1	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0291)		GTCCAGGGTCGCCCTATCCAA	0.448													16	20					0	0	0.004007	0	0	
NOS1	4842	broad.mit.edu	37	12	117672544	117672544	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:117672544G>A	uc001twm.1	-	21	3747	c.3061C>T	c.(3061-3063)CGT>TGT	p.R1021C		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	1021	FAD-binding FR-type.				multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	GTGTGGAGACGCACGAAGATA	0.522													4	15					0	0	0.000602	0	0	
NOS1	4842	broad.mit.edu	37	12	117705930	117705930	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:117705930T>C	uc001twm.1	-	11	2545	c.1859A>G	c.(1858-1860)AAC>AGC	p.N620S		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	620					multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	CATGTCTAAGTTCATCTTCTT	0.522													17	49					0	0	0.004990	0	0	
KSR2	283455	broad.mit.edu	37	12	118105353	118105353	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:118105353C>T	uc001two.2	-	5	1065	c.1010G>A	c.(1009-1011)CGC>CAC	p.R337H		NM_173598	NP_775869	Q6VAB6	KSR2_HUMAN	kinase suppressor of ras 2	366					intracellular signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(10)|central_nervous_system(2)|stomach(1)|large_intestine(1)|breast(1)	15	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					AAAGAAGGAGCGGAGGGAGCG	0.602													8	20					0	0	0.006214	0	0	
KSR2	283455	broad.mit.edu	37	12	118199014	118199014	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:118199014C>T	uc001two.2	-	4	756	c.701G>A	c.(700-702)CGC>CAC	p.R234H		NM_173598	NP_775869	Q6VAB6	KSR2_HUMAN	kinase suppressor of ras 2	263	Pro-rich.				intracellular signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(10)|central_nervous_system(2)|stomach(1)|large_intestine(1)|breast(1)	15	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GTTGGGGGTGCGCGGCGGGGT	0.751													5	19					0	0	0.001168	0	0	
VSIG10	54621	broad.mit.edu	37	12	118506296	118506296	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:118506296G>A	uc001tws.2	-	8	1787	c.1453C>T	c.(1453-1455)CGT>TGT	p.R485C		NM_019086	NP_061959	Q8N0Z9	VSI10_HUMAN	V-set and immunoglobulin domain containing 10	485	Cytoplasmic (Potential).|Glu-rich.					integral to membrane					0						TCTCTCTCACGTGCTCCCTCC	0.383													12	50					0	0	0.001855	0	0	
VSIG10	54621	broad.mit.edu	37	12	118517172	118517172	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:118517172C>T	uc001tws.2	-	4	1238	c.904G>A	c.(904-906)GCC>ACC	p.A302T		NM_019086	NP_061959	Q8N0Z9	VSI10_HUMAN	V-set and immunoglobulin domain containing 10	302	Ig-like C2-type 3.|Extracellular (Potential).					integral to membrane					0						ATGCAGCTGGCGCCCGACTCT	0.522													27	40					0	0	0.009535	0	0	
TAOK3	51347	broad.mit.edu	37	12	118627718	118627718	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:118627718C>T	uc001twx.2	-	14	1518	c.1223G>A	c.(1222-1224)GGC>GAC	p.G408D	TAOK3_uc001twv.2_5'UTR|TAOK3_uc001tww.2_Missense_Mutation_p.G238D|TAOK3_uc001twy.3_Missense_Mutation_p.G408D	NM_016281	NP_057365	Q9H2K8	TAOK3_HUMAN	TAO kinase 3	408					MAPKKK cascade|negative regulation of JNK cascade|positive regulation of JNK cascade|protein autophosphorylation	mitochondrion|plasma membrane	ATP binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					ATCGCCGTGGCCCGCCTCATC	0.572													25	48					0	0	0.003330	0	0	
SUDS3	64426	broad.mit.edu	37	12	118828947	118828947	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:118828947G>A	uc001twz.2	+	6	516	c.377G>A	c.(376-378)CGA>CAA	p.R126Q		NM_022491	NP_071936	Q9H7L9	SDS3_HUMAN	suppressor of defective silencing 3	126	Potential.				chromatin modification|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	Sin3 complex	histone deacetylase binding				0	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CAAGTGGAACGAAATTACATT	0.453													27	86					0	0	0.005443	0	0	
SRRM4	84530	broad.mit.edu	37	12	119583293	119583293	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:119583293G>A	uc001txa.1	+	9	1171	c.879G>A	c.(877-879)TCG>TCA	p.S293S		NM_194286	NP_919262	A7MD48	SRRM4_HUMAN	KIAA1853 protein	293	Ser-rich.				cell differentiation|mRNA processing|nervous system development|regulation of RNA splicing|RNA splicing	nucleus	mRNA binding			ovary(2)	2						ACACGTCCTCGCCACCCTCCA	0.632													4	13					0	0	0.009096	0	0	
SRRM4	84530	broad.mit.edu	37	12	119588980	119588980	+	Missense_Mutation	SNP	C	A	A	rs56390632		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:119588980C>A	uc001txa.1	+	10	1527	c.1235C>A	c.(1234-1236)GCT>GAT	p.A412D		NM_194286	NP_919262	A7MD48	SRRM4_HUMAN	KIAA1853 protein	412	Ser-rich.				cell differentiation|mRNA processing|nervous system development|regulation of RNA splicing|RNA splicing	nucleus	mRNA binding			ovary(2)	2						AATCCCAGGGCTTCCCCCAGG	0.552													28	55					2.12542e-12	2.30176e-12	0.006320	1	0	
CIT	11113	broad.mit.edu	37	12	120142248	120142248	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:120142248G>A	uc001txi.1	-	40	5151	c.5098C>T	c.(5098-5100)CTC>TTC	p.L1700F	CIT_uc001txh.1_Missense_Mutation_p.L1219F|CIT_uc001txj.1_Missense_Mutation_p.L1742F	NM_007174	NP_009105	O14578	CTRO_HUMAN	citron	1700	CNH.				intracellular signal transduction		ATP binding|metal ion binding|protein serine/threonine kinase activity|SH3 domain binding|small GTPase regulator activity			ovary(6)|urinary_tract(1)|lung(1)|breast(1)|skin(1)	10	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)	Myeloproliferative disorder(1001;0.0255)		BRCA - Breast invasive adenocarcinoma(302;0.211)		CAGATGCAGAGCCCGTTCTCA	0.458													17	29					0	0	0.004007	0	0	
ACADS	35	broad.mit.edu	37	12	121175675	121175675	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:121175675G>A	uc001tza.3	+	5	626	c.508G>A	c.(508-510)GCC>ACC	p.A170T	ACADS_uc010szl.1_Intron|ACADS_uc001tzb.3_Missense_Mutation_p.A97T	NM_000017	NP_000008	P16219	ACADS_HUMAN	short-chain acyl-CoA dehydrogenase precursor	170						mitochondrial matrix	butyryl-CoA dehydrogenase activity			central_nervous_system(2)	2	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)	Lung NSC(355;0.163)			NADH(DB00157)	GTCCACCACCGCCCGGGCCGA	0.652													9	22					0	0	0.006214	0	0	
ACADS	35	broad.mit.edu	37	12	121177116	121177116	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:121177116C>T	uc001tza.3	+	10	1222	c.1104C>T	c.(1102-1104)GGC>GGT	p.G368G	ACADS_uc001tzb.3_Silent_p.G249G	NM_000017	NP_000008	P16219	ACADS_HUMAN	short-chain acyl-CoA dehydrogenase precursor	368	FAD; shared with dimeric partner.					mitochondrial matrix	butyryl-CoA dehydrogenase activity			central_nervous_system(2)	2	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)	Lung NSC(355;0.163)			NADH(DB00157)	AGATCCTGGGCGGCATGGGCT	0.642													5	20					0	0	0.001984	0	0	
SPPL3	121665	broad.mit.edu	37	12	121205248	121205248	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:121205248G>A	uc001tzd.2	-	9	1403	c.922C>T	c.(922-924)CGC>TGC	p.R308C	SPPL3_uc009zwz.2_Missense_Mutation_p.R301C|SPPL3_uc001tzc.2_Missense_Mutation_p.R138C	NM_139015	NP_620584	Q8TCT6	PSL4_HUMAN	signal peptide peptidase 3	309						integral to membrane	aspartic-type endopeptidase activity				0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					TTCTGCATGCGCCCGGAGATG	0.547													14	37					0	0	0.002450	0	0	
WDR66	144406	broad.mit.edu	37	12	122359496	122359496	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:122359496A>C	uc009zxk.2	+	2	427	c.285A>C	c.(283-285)GAA>GAC	p.E95D		NM_144668	NP_653269	Q8TBY9	WDR66_HUMAN	WD repeat domain 66	95	Glu-rich.						calcium ion binding			ovary(1)|skin(1)	2	all_neural(191;0.0496)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000155)|Epithelial(86;0.000634)|BRCA - Breast invasive adenocarcinoma(302;0.248)		TACAGGAAGAAACCACAGTAG	0.398													8	98					0	0	0.003080	0	0	
WDR66	144406	broad.mit.edu	37	12	122372182	122372182	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:122372182C>T	uc009zxk.2	+	5	1060	c.918C>T	c.(916-918)TGC>TGT	p.C306C		NM_144668	NP_653269	Q8TBY9	WDR66_HUMAN	WD repeat domain 66	306	WD 1.						calcium ion binding			ovary(1)|skin(1)	2	all_neural(191;0.0496)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000155)|Epithelial(86;0.000634)|BRCA - Breast invasive adenocarcinoma(302;0.248)		CCTGCCTCTGCGTCAGTGAAG	0.532													5	17					0	0	0.004482	0	0	
WDR66	144406	broad.mit.edu	37	12	122396992	122396992	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:122396992G>A	uc009zxk.2	+	13	2267	c.2125G>A	c.(2125-2127)GCA>ACA	p.A709T		NM_144668	NP_653269	Q8TBY9	WDR66_HUMAN	WD repeat domain 66	709	WD 8.						calcium ion binding			ovary(1)|skin(1)	2	all_neural(191;0.0496)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000155)|Epithelial(86;0.000634)|BRCA - Breast invasive adenocarcinoma(302;0.248)		CCAGTATATGGCAACTGCTGT	0.323													42	106					0	0	0.009718	0	0	
B3GNT4	79369	broad.mit.edu	37	12	122691165	122691165	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:122691165G>A	uc001ubx.2	+	3	585	c.367G>A	c.(367-369)GCC>ACC	p.A123T	B3GNT4_uc001uby.2_Missense_Mutation_p.A98T	NM_030765	NP_110392	Q9C0J1	B3GN4_HUMAN	UDP-GlcNAc:betaGal	123	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	galactosyltransferase activity			ovary(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000297)|Epithelial(86;0.000497)|BRCA - Breast invasive adenocarcinoma(302;0.222)		CTTGCTCCTGGCCATCAAGTC	0.602													7	152					0	0	0.008291	0	0	
VPS33A	65082	broad.mit.edu	37	12	122716928	122716928	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:122716928G>A	uc001ucd.2	-	13	1769	c.1656C>T	c.(1654-1656)GGC>GGT	p.G552G	VPS33A_uc001ucc.2_RNA	NM_022916	NP_075067	Q96AX1	VP33A_HUMAN	vacuolar protein sorting 33A	552					lysosome localization|melanosome localization|platelet formation|protein transport|regulation of developmental pigmentation|vesicle docking involved in exocytosis	early endosome|late endosome membrane|lysosomal membrane|perinuclear region of cytoplasm	protein binding			skin(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000336)|Epithelial(86;0.000606)|BRCA - Breast invasive adenocarcinoma(302;0.23)		CGAAGGTTACGCCCCCAAGGA	0.393													5	65					0	0	0.001168	0	0	
GPR81	27198	broad.mit.edu	37	12	123214781	123214781	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:123214781C>T	uc001ucz.2	-	1	349	c.106G>A	c.(106-108)GCC>ACC	p.A36T	GPR81_uc001ucw.1_RNA	NM_032554	NP_115943	Q9BXC0	HCAR1_HUMAN	G protein-coupled receptor 81	36	Helical; Name=1; (Potential).				response to estradiol stimulus	integral to membrane|plasma membrane	G-protein coupled receptor activity				0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.14e-05)|Epithelial(86;3.25e-05)|BRCA - Breast invasive adenocarcinoma(302;0.197)		CCACACAGGGCGACCCCATTG	0.582													4	30					0	0	0.009096	0	0	
CCDC62	84660	broad.mit.edu	37	12	123273396	123273396	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:123273396C>T	uc001udc.2	+	5	735	c.590C>T	c.(589-591)GCG>GTG	p.A197V	CCDC62_uc010tah.1_RNA|CCDC62_uc001udf.2_Missense_Mutation_p.A197V|CCDC62_uc001ude.2_Intron	NM_201435	NP_958843	Q6P9F0	CCD62_HUMAN	coiled-coil domain containing 62 isoform b	197						cytoplasm|nucleus				ovary(2)|large_intestine(1)|pancreas(1)|skin(1)	5	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.51e-06)|Epithelial(86;2.65e-05)|BRCA - Breast invasive adenocarcinoma(302;0.206)		GCCAAGATGGCGGAGACTTGT	0.368													6	58					0	0	0.001168	0	0	
MPHOSPH9	10198	broad.mit.edu	37	12	123648504	123648504	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:123648504A>G	uc001uel.2	-	15	2552	c.2445T>C	c.(2443-2445)AGT>AGC	p.S815S	MPHOSPH9_uc010tal.1_Silent_p.S269S|MPHOSPH9_uc010tam.1_RNA|MPHOSPH9_uc001uem.2_Silent_p.S269S	NM_022782	NP_073619	Q99550	MPP9_HUMAN	M-phase phosphoprotein 9	815					M phase of mitotic cell cycle	centriole|Golgi membrane					0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000182)|Epithelial(86;0.00046)|BRCA - Breast invasive adenocarcinoma(302;0.169)		TACTTGGAGTACTTGATTTAC	0.383													8	123					0	0	0.004482	0	0	
MPHOSPH9	10198	broad.mit.edu	37	12	123687564	123687564	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:123687564C>T	uc001uel.2	-	6	1039	c.932G>A	c.(931-933)GGC>GAC	p.G311D	MPHOSPH9_uc010tal.1_Intron|MPHOSPH9_uc010tam.1_RNA|MPHOSPH9_uc001uem.2_Intron	NM_022782	NP_073619	Q99550	MPP9_HUMAN	M-phase phosphoprotein 9	311					M phase of mitotic cell cycle	centriole|Golgi membrane					0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000182)|Epithelial(86;0.00046)|BRCA - Breast invasive adenocarcinoma(302;0.169)		ATTCGGAAGGCCGTGAGGTTG	0.473													45	124					0	0	0.003610	0	0	
RILPL2	196383	broad.mit.edu	37	12	123915117	123915117	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:123915117C>T	uc001uey.1	-	2	726	c.429G>A	c.(427-429)CAG>CAA	p.Q143Q		NM_145058	NP_659495	Q969X0	RIPL2_HUMAN	Rab interacting lysosomal protein-like 2	143	Potential.|RILP-like.					cytosol|plasma membrane	identical protein binding				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000546)|Epithelial(86;0.00179)|all cancers(50;0.0168)		TGTTGCGTTCCTGCAGCACAT	0.572													4	88					0	0	0.001984	0	0	
RILPL1	353116	broad.mit.edu	37	12	123957201	123957201	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:123957201G>A	uc001ufe.2	-	7	1332	c.1096C>T	c.(1096-1098)CGC>TGC	p.R366C	RILPL1_uc001ufd.2_Missense_Mutation_p.R215C|RILPL1_uc010tas.1_3'UTR	NM_178314	NP_847884	Q5EBL4	RIPL1_HUMAN	Rab interacting lysosomal protein-like 1	366					neuroprotection	cytosol					0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000224)|Epithelial(86;0.00067)|all cancers(50;0.00836)|BRCA - Breast invasive adenocarcinoma(302;0.197)		TTGGCCAGGCGCTTCTTATCT	0.512													4	8					0	0	0.009096	0	0	
GTF2H3	2967	broad.mit.edu	37	12	124144112	124144112	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:124144112C>A	uc001ufo.1	+	10	691	c.665C>A	c.(664-666)TCT>TAT	p.S222Y	GTF2H3_uc010tau.1_Missense_Mutation_p.S181Y	NM_001516	NP_001507	Q13889	TF2H3_HUMAN	general transcription factor IIH, polypeptide 3,	222					mRNA capping|nucleotide-excision repair, DNA damage removal|positive regulation of viral transcription|protein phosphorylation|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	core TFIIH complex|holo TFIIH complex	damaged DNA binding|metal ion binding|protein N-terminus binding|sequence-specific DNA binding transcription factor activity|translation factor activity, nucleic acid binding				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.1e-05)|Epithelial(86;0.000388)|all cancers(50;0.00362)		CAGATGCCTTCTCTTCTGCAG	0.552								NER					13	29					4.3838e-07	4.66527e-07	0.001855	1	0	
DNAH10	196385	broad.mit.edu	37	12	124337847	124337847	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:124337847C>T	uc001uft.3	+	35	6057	c.6032C>T	c.(6031-6033)TCG>TTG	p.S2011L		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	2011	AAA 1 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		GCCCTGAAATCGGTGCTGGTC	0.527													3	11					0	0	0.009096	0	0	
CCDC92	80212	broad.mit.edu	37	12	124422003	124422003	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:124422003C>T	uc001ufw.1	-	5	745	c.598G>A	c.(598-600)GAA>AAA	p.E200K	CCDC92_uc001ufv.1_Missense_Mutation_p.E183K|CCDC92_uc001ufx.1_Missense_Mutation_p.E200K|CCDC92_uc001ufy.1_Missense_Mutation_p.E183K	NM_025140	NP_079416	Q53HC0	CCD92_HUMAN	coiled-coil domain containing 92	200											0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			Epithelial(86;0.0002)|OV - Ovarian serous cystadenocarcinoma(86;0.000222)|all cancers(50;0.00129)|BRCA - Breast invasive adenocarcinoma(302;0.242)		CGAGGCGTTTCGGGTAGCTTG	0.602													4	19					0	0	0.001168	0	0	
FAM101A	144347	broad.mit.edu	37	12	124798908	124798908	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:124798908G>A	uc001ugd.1	+	3	488	c.245G>A	c.(244-246)CGC>CAC	p.R82H	FAM101A_uc001uge.1_Missense_Mutation_p.R82H	NM_181709	NP_859060	Q6ZTI6	F101A_HUMAN	hypothetical protein LOC144347	163											0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			Epithelial(86;2.38e-05)|OV - Ovarian serous cystadenocarcinoma(86;6.95e-05)|all cancers(50;0.000361)|BRCA - Breast invasive adenocarcinoma(302;0.059)		CGCGCCCTGCGCTTCCGCAGC	0.687													4	39					0	0	0.001168	0	0	
NCOR2	9612	broad.mit.edu	37	12	124824566	124824566	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:124824566C>T	uc010tay.1	-	39	5859	c.5703G>A	c.(5701-5703)ACG>ACA	p.T1901T	NCOR2_uc010taz.1_Silent_p.T1885T|NCOR2_uc010tax.1_Silent_p.T12T	NM_006312	NP_006303	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 1	1902				T -> K (in Ref. 2; AAD20946, 3; AAD22973, 4; AAX77219 and 8; AAC50236).	cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		GGACCGTGGGCGTGCTGGGCT	0.418													4	17					0	0	0.001168	0	0	
NCOR2	9612	broad.mit.edu	37	12	124857100	124857100	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:124857100C>T	uc010tba.1	-	20	2392	c.2275G>A	c.(2275-2277)GCC>ACC	p.A759T	NCOR2_uc010tay.1_Missense_Mutation_p.A759T|NCOR2_uc010taz.1_Missense_Mutation_p.A742T|NCOR2_uc010tbb.1_Missense_Mutation_p.A759T|NCOR2_uc010tbc.1_Missense_Mutation_p.A741T|NCOR2_uc001ugj.1_Missense_Mutation_p.A759T	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2	759					cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		GTGTCCTTGGCGGCCTCAGTG	0.687													13	13					0	0	0.008871	0	0	
DHX37	57647	broad.mit.edu	37	12	125448952	125448952	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:125448952C>T	uc001ugy.2	-	15	2132	c.2033G>A	c.(2032-2034)GGC>GAC	p.G678D		NM_032656	NP_116045	Q8IY37	DHX37_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 37	678	Helicase C-terminal.						ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;8.05e-05)|Epithelial(86;0.000486)|all cancers(50;0.00653)		GTAGCAGTGGCCGGGCTCCGT	0.642													9	15					0	0	0.000978	0	0	
TMEM132B	114795	broad.mit.edu	37	12	125900205	125900205	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:125900205G>A	uc001uhe.1	+	3	1081	c.1073G>A	c.(1072-1074)CGC>CAC	p.R358H		NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B	358	Extracellular (Potential).					integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)		ATGGGCCATCGCCCGGACACG	0.592													10	41					0	0	0.000978	0	0	
TMEM132B	114795	broad.mit.edu	37	12	126138478	126138478	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:126138478G>A	uc001uhe.1	+	9	2467	c.2459G>A	c.(2458-2460)CGC>CAC	p.R820H	TMEM132B_uc001uhf.1_Missense_Mutation_p.R332H	NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B	820	Extracellular (Potential).					integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)		TCCATAGAGCGCGAAGGAAAC	0.498													26	60					0	0	0.003954	0	0	
FZD10	11211	broad.mit.edu	37	12	130647640	130647640	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:130647640T>C	uc001uii.2	+	1	609	c.153T>C	c.(151-153)CGT>CGC	p.R51R	uc001uig.1_5'Flank|uc001uih.1_5'Flank	NM_007197	NP_009128	Q9ULW2	FZD10_HUMAN	frizzled 10 precursor	51	FZ.|Extracellular (Potential).				brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|embryo development|gonad development|negative regulation of Rho GTPase activity|neuron differentiation|non-canonical Wnt receptor signaling pathway|positive regulation of JUN kinase activity|positive regulation of Rac GTPase activity|regulation of actin cytoskeleton organization|vasculature development	cell projection|cell surface|cytoplasm|integral to plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(3)|breast(1)|central_nervous_system(1)	5	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.3e-06)|Epithelial(86;1.66e-05)|all cancers(50;5.18e-05)		ACATGACTCGTATGCCCAACC	0.647													4	5					0	0	0.000602	0	0	
PIWIL1	9271	broad.mit.edu	37	12	130842068	130842068	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:130842068A>G	uc001uik.2	+	14	1725	c.1635A>G	c.(1633-1635)TTA>TTG	p.L545L	PIWIL1_uc001uij.1_Silent_p.L545L	NM_004764	NP_004755	Q96J94	PIWL1_HUMAN	piwi-like 1	545	RNA-binding (By similarity).				gene silencing by RNA|meiosis|multicellular organismal development|regulation of translation|spermatid development	chromatoid body|P granule	mRNA binding|piRNA binding|protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.02e-06)|Epithelial(86;3.85e-05)|all cancers(50;4.65e-05)		TAAGAGTCTTACAGCAAAAGG	0.418													22	64					0	0	0.002780	0	0	
RIMBP2	23504	broad.mit.edu	37	12	130919323	130919323	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:130919323C>T	uc001uil.2	-	11	2322	c.2158G>A	c.(2158-2160)GCC>ACC	p.A720T	RIMBP2_uc001uim.2_Missense_Mutation_p.A628T|RIMBP2_uc001uin.1_Missense_Mutation_p.A379T	NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2	720						cell junction|synapse				upper_aerodigestive_tract(3)|ovary(3)|large_intestine(2)|central_nervous_system(2)|pancreas(1)	11	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.213)		OV - Ovarian serous cystadenocarcinoma(86;4.29e-06)|all cancers(50;4.56e-05)|Epithelial(86;5.41e-05)		TCCACCGAGGCGCCCCTCCTC	0.647													11	35					0	0	0.003163	0	0	
SFRS8	6433	broad.mit.edu	37	12	132237801	132237801	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:132237801C>T	uc001uja.1	+	8	1355	c.1215C>T	c.(1213-1215)TCC>TCT	p.S405S	SFRS8_uc010tbn.1_Silent_p.S405S|SFRS8_uc001ujb.1_Silent_p.S198S|SFRS8_uc001uiz.1_Silent_p.S279S	NM_004592	NP_004583	Q12872	SFSWA_HUMAN	splicing factor, arginine/serine-rich 8	405					mRNA splice site selection|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|RNA binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.44e-07)|Epithelial(86;2.94e-06)|all cancers(50;4.82e-05)		TGTCTAACTCCCCTGGAGTGA	0.647													20	42					0	0	0.001882	0	0	
SFRS8	6433	broad.mit.edu	37	12	132239022	132239022	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:132239022G>A	uc001uja.1	+	9	1572	c.1432G>A	c.(1432-1434)GTT>ATT	p.V478I	SFRS8_uc010tbn.1_Missense_Mutation_p.V478I|SFRS8_uc001ujb.1_Missense_Mutation_p.V271I|SFRS8_uc001uiz.1_Missense_Mutation_p.V352I	NM_004592	NP_004583	Q12872	SFSWA_HUMAN	splicing factor, arginine/serine-rich 8	478	SURP motif 2.				mRNA splice site selection|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|RNA binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.44e-07)|Epithelial(86;2.94e-06)|all cancers(50;4.82e-05)		CGAGACCAGTGTTCGTGCCAA	0.502													4	60					0	0	0.000602	0	0	
ULK1	8408	broad.mit.edu	37	12	132399917	132399917	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:132399917G>A	uc001uje.2	+	18	1828	c.1560G>A	c.(1558-1560)ACG>ACA	p.T520T		NM_003565	NP_003556	O75385	ULK1_HUMAN	Unc-51-like kinase 1	520					autophagy|protein localization|regulation of autophagy	autophagic vacuole|cytosol|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	ATP binding|protein complex binding|protein serine/threonine kinase activity			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.07e-08)|Epithelial(86;2.56e-07)|all cancers(50;3.01e-07)		GGAGCGGGACGCCCTCCCCAC	0.672													4	16					0	0	0.009096	0	0	
EP400	57634	broad.mit.edu	37	12	132514593	132514593	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:132514593C>A	uc001ujn.2	+	28	5679	c.5644C>A	c.(5644-5646)CTG>ATG	p.L1882M	EP400_uc001ujl.2_Missense_Mutation_p.L1881M|EP400_uc001ujm.2_Missense_Mutation_p.L1801M|SNORA49_uc001ujo.2_5'Flank	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	1918	Helicase C-terminal.				histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		ACGTCGGGTGCTGATTTTATC	0.418													8	128					5.18039e-06	5.47617e-06	0.003080	1	0	
EP400	57634	broad.mit.edu	37	12	132529374	132529374	+	Silent	SNP	C	T	T	rs147763834	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:132529374C>T	uc001ujn.2	+	36	6695	c.6660C>T	c.(6658-6660)GAC>GAT	p.D2220D	EP400_uc001ujl.2_Silent_p.D2219D|EP400_uc001ujm.2_Silent_p.D2139D	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	2256					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		CGCCGCAGGACGACAGCGACA	0.592													9	31					0	0	0.001368	0	0	
POLE	5426	broad.mit.edu	37	12	133256788	133256788	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:133256788C>T	uc001uks.1	-	4	350	c.306G>A	c.(304-306)CCG>CCA	p.P102P	POLE_uc010tbq.1_RNA|POLE_uc009zyu.1_Silent_p.P75P	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	102					base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		TGTAGAAATACGGTTTATAGG	0.468								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					6	107					0	0	0.001168	0	0	
ANKLE2	23141	broad.mit.edu	37	12	133303972	133303972	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:133303972G>A	uc001ukx.2	-	13	2740	c.2673C>T	c.(2671-2673)GGC>GGT	p.G891G	ANKLE2_uc009zyw.1_Silent_p.G246G	NM_015114	NP_055929	Q86XL3	ANKL2_HUMAN	ankyrin repeat and LEM domain containing 2	891						cytoplasm|integral to membrane|nuclear envelope					0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.3e-08)|Epithelial(86;1.56e-07)|all cancers(50;4.94e-06)		AGCTGTGAGGGCCACTGAGAT	0.627													4	5					0	0	0.001168	0	0	
GOLGA3	2802	broad.mit.edu	37	12	133381403	133381403	+	Missense_Mutation	SNP	G	A	A	rs138594544	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:133381403G>A	uc001ukz.1	-	7	2055	c.1496C>T	c.(1495-1497)GCG>GTG	p.A499V	GOLGA3_uc001ula.1_Missense_Mutation_p.A499V|GOLGA3_uc001ulb.2_Missense_Mutation_p.A499V	NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3	499	Potential.				intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		GTTGGACGACGCCAGGCTGGC	0.582													25	50					0	0	0.008361	0	0	
GOLGA3	2802	broad.mit.edu	37	12	133385136	133385136	+	Splice_Site	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:133385136C>T	uc001ukz.1	-	5	1079	c.520_splice	c.e5-1	p.S174_splice	GOLGA3_uc001ula.1_Splice_Site_p.S174_splice|GOLGA3_uc001ulb.2_Splice_Site_p.S174_splice	NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3						intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		GTTGACTGGACTGAGAAGAAA	0.433													16	190					0	0	0.003163	0	0	
ZNF140	7699	broad.mit.edu	37	12	133683228	133683228	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:133683228A>C	uc001ulo.2	+	5	2035	c.1365A>C	c.(1363-1365)GAA>GAC	p.E455D	ZNF140_uc001ulp.2_Missense_Mutation_p.E352D|ZNF140_uc010tbu.1_Missense_Mutation_p.E352D	NM_003440	NP_003431	P52738	ZN140_HUMAN	zinc finger protein 140	455						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_cancers(7;1.28e-06)|all_epithelial(31;0.0051)|Lung NSC(355;0.114)		OV - Ovarian serous cystadenocarcinoma(86;3.58e-08)|Epithelial(86;6.6e-07)|all cancers(50;2.28e-05)		TCCTTACTGAACACCAGTGAA	0.353													15	61					0	0	0.003163	0	0	
LOC284232	284232	broad.mit.edu	37	13	19419821	19419822	+	RNA	DNP	TG	CA	CA			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:19419821_19419822TG>CA	uc010tcj.1	-	1		c.26288_26289CA>TG				NR_027995				Homo sapiens ankyrin repeat domain 20 family, member A2 pseudogene (LOC284232), non-coding RNA.												0						ATTTGGACTATGCTTTGTTACT	0.257													5	52					0	0	0.004672	0	0	
TPTE2	93492	broad.mit.edu	37	13	20056655	20056655	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:20056655T>C	uc001umd.2	-	5	363	c.152A>G	c.(151-153)GAA>GGA	p.E51G	TPTE2_uc009zzk.2_Intron|TPTE2_uc009zzl.2_Missense_Mutation_p.E51G|TPTE2_uc001ume.2_Intron|TPTE2_uc009zzm.2_Intron|TPTE2_uc010tcm.1_RNA	NM_199254	NP_954863	Q6XPS3	TPTE2_HUMAN	TPTE and PTEN homologous inositol lipid	51						endoplasmic reticulum membrane|integral to membrane	ion channel activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(29;1.23e-20)|all_lung(29;1.97e-20)|all_epithelial(30;5.86e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.73e-05)|Epithelial(112;7.42e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000785)|Lung(94;0.0176)|LUSC - Lung squamous cell carcinoma(192;0.089)		TTCAGCATCTTCAACTTCAAA	0.348													4	45					0	0	0.000602	0	0	
TPTE2	93492	broad.mit.edu	37	13	20056687	20056687	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:20056687A>T	uc001umd.2	-	5	331	c.120T>A	c.(118-120)AGT>AGA	p.S40R	TPTE2_uc009zzk.2_Intron|TPTE2_uc009zzl.2_Missense_Mutation_p.S40R|TPTE2_uc001ume.2_Intron|TPTE2_uc009zzm.2_Intron|TPTE2_uc010tcm.1_RNA	NM_199254	NP_954863	Q6XPS3	TPTE2_HUMAN	TPTE and PTEN homologous inositol lipid	40						endoplasmic reticulum membrane|integral to membrane	ion channel activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(29;1.23e-20)|all_lung(29;1.97e-20)|all_epithelial(30;5.86e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.73e-05)|Epithelial(112;7.42e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000785)|Lung(94;0.0176)|LUSC - Lung squamous cell carcinoma(192;0.089)		GTTCTAACATACTTTAGCCAC	0.313													5	43					0	0	0.008291	0	0	
PSPC1	55269	broad.mit.edu	37	13	20279899	20279899	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:20279899G>A	uc001uml.2	-	8	1475	c.1289C>T	c.(1288-1290)GCA>GTA	p.A430V	PSPC1_uc001umj.1_Intron|PSPC1_uc001umk.1_Intron	NM_001042414	NP_001035879	Q8WXF1	PSPC1_HUMAN	paraspeckle protein 1	430	Gly-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nuclear matrix|nucleolus	nucleotide binding|protein binding|RNA binding			breast(1)	1		all_cancers(29;1.25e-22)|all_lung(29;1.97e-20)|all_epithelial(30;2.29e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;4.63e-06)|Epithelial(112;2.29e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00256)|Lung(94;0.00975)|LUSC - Lung squamous cell carcinoma(192;0.0483)		AGGTATAGTTGCTCTGTTGTT	0.488													10	56					0	0	0.003163	0	0	
ZMYM2	7750	broad.mit.edu	37	13	20641083	20641083	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:20641083C>T	uc001umr.2	+	21	3523	c.3225C>T	c.(3223-3225)GGC>GGT	p.G1075G	ZMYM2_uc001ums.2_Silent_p.G1075G|ZMYM2_uc001umt.2_Silent_p.G1075G|ZMYM2_uc001umv.2_Silent_p.G455G|ZMYM2_uc001umw.2_Silent_p.G528G	NM_003453	NP_003444	Q9UBW7	ZMYM2_HUMAN	zinc finger protein 198	1075					regulation of transcription, DNA-dependent|transcription, DNA-dependent	PML body	ubiquitin conjugating enzyme binding|zinc ion binding			lung(3)|ovary(2)|prostate(1)	6		all_cancers(29;8.65e-21)|all_epithelial(30;1.04e-18)|all_lung(29;6.75e-18)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;0.000148)|Epithelial(112;0.000249)|OV - Ovarian serous cystadenocarcinoma(117;0.00816)|Lung(94;0.0173)|LUSC - Lung squamous cell carcinoma(192;0.0856)		ATACGTATGGCGTAAATGCAT	0.368													7	72					0	0	0.003080	0	0	
IFT88	8100	broad.mit.edu	37	13	21189979	21189979	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:21189979C>T	uc001unh.2	+	16	1583	c.1187C>T	c.(1186-1188)GCT>GTT	p.A396V	IFT88_uc001uni.2_Missense_Mutation_p.A387V|IFT88_uc001unj.2_Missense_Mutation_p.A386V|IFT88_uc010tcq.1_Missense_Mutation_p.A367V|IFT88_uc001unk.2_Missense_Mutation_p.A142V|IFT88_uc001unl.1_Missense_Mutation_p.A14V	NM_175605	NP_783195	Q13099	IFT88_HUMAN	intraflagellar transport 88 homolog isoform 1	396					cilium morphogenesis	centriole|intraflagellar transport particle B|microtubule basal body|microtubule-based flagellum	protein binding			ovary(1)	1		all_cancers(29;5.79e-25)|all_epithelial(30;2.57e-20)|all_lung(29;3.13e-16)|Lung SC(185;0.0262)|Ovarian(182;0.0825)|Hepatocellular(188;0.244)		all cancers(112;0.000667)|Epithelial(112;0.00119)|OV - Ovarian serous cystadenocarcinoma(117;0.0141)|Lung(94;0.0183)|LUSC - Lung squamous cell carcinoma(192;0.0528)		AAACTCATTGCTCCTGTAATT	0.274													5	80					0	0	0.000602	0	0	
LATS2	26524	broad.mit.edu	37	13	21555688	21555688	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:21555688G>A	uc009zzs.2	-	6	2947	c.2582C>T	c.(2581-2583)GCG>GTG	p.A861V	LATS2_uc001unr.3_Missense_Mutation_p.A861V	NM_014572	NP_055387	Q9NRM7	LATS2_HUMAN	LATS, large tumor suppressor, homolog 2	861	Protein kinase.				cell division|G1/S transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|intracellular protein kinase cascade|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity	microtubule organizing center|nucleus|spindle pole	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|central_nervous_system(3)|ovary(2)|breast(1)|pancreas(1)	10		all_cancers(29;4.74e-22)|all_epithelial(30;1.45e-18)|all_lung(29;4.69e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000781)|Epithelial(112;0.00144)|OV - Ovarian serous cystadenocarcinoma(117;0.0183)|Lung(94;0.0375)|LUSC - Lung squamous cell carcinoma(192;0.104)		CTGCTTCCGCGCCCTCTGCTC	0.612													7	35					0	0	0.001984	0	0	
FGF9	2254	broad.mit.edu	37	13	22246290	22246290	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:22246290G>A	uc001uog.2	+	1	1076	c.239G>A	c.(238-240)GGT>GAT	p.G80D		NM_002010	NP_002001	P31371	FGF9_HUMAN	fibroblast growth factor 9 precursor	80					cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|male gonad development|positive regulation of cell division	extracellular space	growth factor activity|heparin binding				0		all_cancers(29;1.23e-20)|all_epithelial(30;9.83e-19)|all_lung(29;9.64e-17)|Lung SC(185;0.0262)|Breast(139;0.106)		all cancers(112;3.92e-05)|Epithelial(112;0.000166)|OV - Ovarian serous cystadenocarcinoma(117;0.00314)|Lung(94;0.163)		TTCCCCAATGGTACTATCCAG	0.463													17	42					0	0	0.008871	0	0	
SACS	26278	broad.mit.edu	37	13	23906034	23906034	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:23906034G>A	uc001uon.2	-	10	12570	c.11981C>T	c.(11980-11982)GCG>GTG	p.A3994V	SACS_uc001uoo.2_Missense_Mutation_p.A3847V|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	3994					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		AGAACACAACGCTCCAAACTG	0.353													9	98					0	0	0.006214	0	0	
SACS	26278	broad.mit.edu	37	13	23908271	23908271	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:23908271C>T	uc001uon.2	-	10	10333	c.9744G>A	c.(9742-9744)TGG>TGA	p.W3248*	SACS_uc001uoo.2_Nonsense_Mutation_p.W3101*|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	3248			W -> R (in SACS).		cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		TAATAAAATGCCATGCATTCT	0.368													11	67					0	0	0.003163	0	0	
SACS	26278	broad.mit.edu	37	13	23909914	23909914	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:23909914G>A	uc001uon.2	-	10	8690	c.8101C>T	c.(8101-8103)CCT>TCT	p.P2701S	SACS_uc001uoo.2_Missense_Mutation_p.P2554S|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	2701					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		TTACGAAGAGGAAATCTGAAC	0.403													20	63					0	0	0.008871	0	0	
SACS	26278	broad.mit.edu	37	13	23942607	23942607	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:23942607C>T	uc001uon.2	-	5	868	c.279G>A	c.(277-279)ACG>ACA	p.T93T	SACS_uc001uoo.2_5'UTR|SACS_uc001uoq.1_5'UTR	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	93					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		CAAGTGGTGGCGTTGTCTGAC	0.393													12	22					0	0	0.001855	0	0	
TNFRSF19	55504	broad.mit.edu	37	13	24190110	24190110	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:24190110C>T	uc001uov.1	+	4	349	c.285C>T	c.(283-285)TGC>TGT	p.C95C	TNFRSF19_uc001uot.2_Silent_p.C95C|TNFRSF19_uc010tcu.1_5'UTR|TNFRSF19_uc001uow.2_Silent_p.C95C	NM_018647	NP_061117	Q9NS68	TNR19_HUMAN	tumor necrosis factor receptor superfamily,	95	TNFR-Cys 2.|Extracellular (Potential).				apoptosis|induction of apoptosis|JNK cascade	integral to membrane|mitochondrion	tumor necrosis factor receptor activity			kidney(1)|skin(1)	2		all_cancers(29;3.4e-22)|all_epithelial(30;8.75e-19)|all_lung(29;5.09e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00193)|Epithelial(112;0.0137)|OV - Ovarian serous cystadenocarcinoma(117;0.0465)|GBM - Glioblastoma multiforme(144;0.184)|Lung(94;0.19)		GTCTGGACTGCGCAGTGGTGA	0.572													17	48					0	0	0.004990	0	0	
SPATA13	221178	broad.mit.edu	37	13	24860366	24860366	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:24860366C>T	uc001upg.1	+	5	848	c.441C>T	c.(439-441)GGC>GGT	p.G147G	SPATA13_uc001upd.1_Silent_p.G772G|C1QTNF9_uc001upe.2_RNA|SPATA13_uc010tcy.1_Silent_p.G93G|SPATA13_uc010tcz.1_Silent_p.G93G|SPATA13_uc010tda.1_Silent_p.G91G|SPATA13_uc001uph.2_Silent_p.G69G|SPATA13_uc010tdb.1_Silent_p.G69G|SPATA13_uc009zzz.1_5'Flank	NM_153023	NP_694568	Q96N96	SPT13_HUMAN	spermatogenesis associated 13	147	SH3.|ABR (APC-binding region) domain.				cell migration|filopodium assembly|lamellipodium assembly|regulation of cell migration|regulation of Rho protein signal transduction	cytoplasm|filopodium|lamellipodium|ruffle membrane	protein binding|Rac guanyl-nucleotide exchange factor activity			skin(2)|ovary(1)	3		all_cancers(29;4.05e-15)|all_lung(29;2.77e-14)|all_epithelial(30;7.77e-13)|Lung SC(185;0.0279)		all cancers(112;0.00616)|Epithelial(112;0.0195)|OV - Ovarian serous cystadenocarcinoma(117;0.0705)|Lung(94;0.231)		TCAGTGATGGCAACGTGGTCT	0.592													16	117					0	0	0.006122	0	0	
PARP4	143	broad.mit.edu	37	13	25008533	25008533	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:25008533C>A	uc001upl.2	-	31	4852	c.4746G>T	c.(4744-4746)GAG>GAT	p.E1582D		NM_006437	NP_006428	Q9UKK3	PARP4_HUMAN	poly (ADP-ribose) polymerase family, member 4	1582	Interaction with the major vault protein.				cell death|DNA repair|inflammatory response|protein ADP-ribosylation|response to drug|transport	cytoplasm|nucleus|ribonucleoprotein complex|spindle microtubule	DNA binding|enzyme binding|NAD+ ADP-ribosyltransferase activity			ovary(3)|skin(1)	4		all_epithelial(30;7.67e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.000127)|Epithelial(112;0.000778)|Kidney(163;0.039)|OV - Ovarian serous cystadenocarcinoma(117;0.0578)|KIRC - Kidney renal clear cell carcinoma(186;0.135)|Lung(94;0.195)		AGACACATACCTCTGTCTGTA	0.423													7	68					3.09899e-07	3.29863e-07	0.004482	1	0	
PARP4	143	broad.mit.edu	37	13	25075838	25075838	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:25075838T>C	uc001upl.2	-	3	373	c.267A>G	c.(265-267)GTA>GTG	p.V89V	PARP4_uc010tdc.1_Silent_p.V89V	NM_006437	NP_006428	Q9UKK3	PARP4_HUMAN	poly (ADP-ribose) polymerase family, member 4	89	BRCT.				cell death|DNA repair|inflammatory response|protein ADP-ribosylation|response to drug|transport	cytoplasm|nucleus|ribonucleoprotein complex|spindle microtubule	DNA binding|enzyme binding|NAD+ ADP-ribosyltransferase activity			ovary(3)|skin(1)	4		all_epithelial(30;7.67e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.000127)|Epithelial(112;0.000778)|Kidney(163;0.039)|OV - Ovarian serous cystadenocarcinoma(117;0.0578)|KIRC - Kidney renal clear cell carcinoma(186;0.135)|Lung(94;0.195)		CATAATTCTTTACATCCAAGA	0.398													5	113					0	0	0.001168	0	0	
CENPJ	55835	broad.mit.edu	37	13	25480954	25480954	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:25480954C>T	uc001upt.3	-	7	1475	c.1222G>A	c.(1222-1224)GAG>AAG	p.E408K	CENPJ_uc010tdf.1_RNA|CENPJ_uc010aae.2_RNA|CENPJ_uc010aaf.2_RNA|CENPJ_uc001upu.2_5'Flank	NM_018451	NP_060921	Q9HC77	CENPJ_HUMAN	centromere protein J	408					cell division|centriole replication|G2/M transition of mitotic cell cycle|microtubule nucleation|microtubule polymerization	centriole|cytosol|gamma-tubulin small complex|microtubule	protein domain specific binding|tubulin binding			ovary(2)	2		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.00793)|Epithelial(112;0.0411)|OV - Ovarian serous cystadenocarcinoma(117;0.139)		GGCTGGTCCTCGGAAGTGCTC	0.393													12	37					0	0	0.002450	0	0	
PABPC3	5042	broad.mit.edu	37	13	25670410	25670410	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:25670410C>T	uc001upy.2	+	1	135	c.74C>T	c.(73-75)GCG>GTG	p.A25V		NM_030979	NP_112241	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	25	RRM 1.				mRNA metabolic process	cytoplasm	nucleotide binding|poly(A) RNA binding			ovary(3)|skin(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		GTGACTGAGGCGATGCTCTAC	0.642													12	36					0	0	0.001855	0	0	
PABPC3	5042	broad.mit.edu	37	13	25671495	25671495	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:25671495G>A	uc001upy.2	+	1	1220	c.1159G>A	c.(1159-1161)GCA>ACA	p.A387T		NM_030979	NP_112241	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	387					mRNA metabolic process	cytoplasm	nucleotide binding|poly(A) RNA binding			ovary(3)|skin(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		GCAGAGAATGGCAAGTGTACG	0.502													22	96					0	0	0.001882	0	0	
ATP8A2	51761	broad.mit.edu	37	13	26144987	26144987	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:26144987T>A	uc001uqk.2	+	17	1698	c.1556T>A	c.(1555-1557)ATC>AAC	p.I519N	ATP8A2_uc010tdi.1_Missense_Mutation_p.I479N|ATP8A2_uc010tdj.1_RNA|ATP8A2_uc010aaj.1_Missense_Mutation_p.I29N|ATP8A2_uc001uql.1_Missense_Mutation_p.I479N	NM_016529	NP_057613	Q9NTI2	AT8A2_HUMAN	ATPase, aminophospholipid transporter-like,	479	Cytoplasmic (Potential).				ATP biosynthetic process|negative regulation of cell proliferation	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|large_intestine(1)|skin(1)	4		Breast(139;0.0201)|Lung SC(185;0.0225)		all cancers(112;0.043)|OV - Ovarian serous cystadenocarcinoma(117;0.0748)|Epithelial(112;0.079)		GGAGATAACATCATCTACCAG	0.592													4	36					0	0	0.009096	0	0	
RNF6	6049	broad.mit.edu	37	13	26792703	26792703	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:26792703G>A	uc001uqo.2	-	4	525	c.234C>T	c.(232-234)GGC>GGT	p.G78G	RNF6_uc001uqn.1_Silent_p.G78G|RNF6_uc010aak.2_Silent_p.G78G|RNF6_uc001uqp.2_Silent_p.G78G|RNF6_uc001uqq.2_Silent_p.G78G|RNF6_uc010tdk.1_5'UTR	NM_183044	NP_898865	Q9Y252	RNF6_HUMAN	ring finger protein 6	78					negative regulation of axon extension|positive regulation of transcription, DNA-dependent|protein K27-linked ubiquitination|protein K48-linked ubiquitination|protein K6-linked ubiquitination|regulation of androgen receptor signaling pathway|ubiquitin-dependent protein catabolic process	axon|cytoplasm|PML body	androgen receptor binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|skin(1)	2	Colorectal(5;0.000442)	Lung SC(185;0.0156)|Breast(139;0.147)		all cancers(112;0.00893)|Epithelial(112;0.0481)|OV - Ovarian serous cystadenocarcinoma(117;0.148)|GBM - Glioblastoma multiforme(144;0.23)|Lung(94;0.245)		GTTCCTTGACGCCATCTAACC	0.403													8	137					0	0	0.008291	0	0	
GPR12	2835	broad.mit.edu	37	13	27333601	27333601	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:27333601C>T	uc010aal.2	-	2	586	c.364G>A	c.(364-366)GCC>ACC	p.A122T	GPR12_uc010tdl.1_Intron	NM_005288	NP_005279	P47775	GPR12_HUMAN	G protein-coupled receptor 12	122	Helical; Name=3; (Potential).					integral to plasma membrane					0	Colorectal(5;5.77e-05)	Breast(139;0.198)		Epithelial(112;9.37e-07)|OV - Ovarian serous cystadenocarcinoma(117;1.16e-06)|all cancers(112;8.31e-06)|GBM - Glioblastoma multiforme(144;0.00121)|Lung(94;0.111)|LUSC - Lung squamous cell carcinoma(192;0.184)		GAGAAAGAGGCGACAATGAGG	0.542													5	69					0	0	0.001168	0	0	
FLT3	2322	broad.mit.edu	37	13	28592704	28592704	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:28592704G>A	uc001urw.2	-	20	2523	c.2441C>T	c.(2440-2442)GCC>GTC	p.A814V	FLT3_uc010aao.2_RNA|FLT3_uc010tdn.1_Intron	NM_004119	NP_004110	P36888	FLT3_HUMAN	fms-related tyrosine kinase 3 precursor	814	Protein kinase.|Cytoplasmic (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|vascular endothelial growth factor receptor activity			haematopoietic_and_lymphoid_tissue(8536)|lung(7)|ovary(3)|stomach(1)|central_nervous_system(1)|skin(1)	8549	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0156)|Ovarian(182;0.0392)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	OV - Ovarian serous cystadenocarcinoma(117;0.00154)|all cancers(112;0.00459)|GBM - Glioblastoma multiforme(144;0.00562)|Epithelial(112;0.0959)|Lung(94;0.212)	Sorafenib(DB00398)|Sunitinib(DB01268)	CACGTTCCTGGCGGCCAGGTC	0.453			Mis|O		AML|ALL								4	48					0	0	0.009096	0	0	
FLT1	2321	broad.mit.edu	37	13	29002038	29002038	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:29002038G>A	uc001usb.3	-	9	1412	c.1127C>T	c.(1126-1128)GCG>GTG	p.A376V	FLT1_uc010aar.1_Missense_Mutation_p.A376V|FLT1_uc001usc.3_Missense_Mutation_p.A376V|FLT1_uc010tdp.1_Missense_Mutation_p.A376V	NM_002019	NP_002010	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1 isoform 1	376	Ig-like C2-type 4.|Extracellular (Potential).				cell differentiation|female pregnancy|positive regulation of vascular endothelial growth factor receptor signaling pathway	extracellular space|Golgi apparatus|integral to plasma membrane|nucleus	ATP binding|growth factor binding|vascular endothelial growth factor receptor activity			lung(10)|central_nervous_system(5)|ovary(3)|stomach(2)|skin(2)|urinary_tract(1)|breast(1)	24	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)|Breast(139;0.188)	Colorectal(13;0.000674)	all cancers(112;0.0301)|Epithelial(112;0.155)|GBM - Glioblastoma multiforme(144;0.184)|OV - Ovarian serous cystadenocarcinoma(117;0.205)|Lung(94;0.207)	Sunitinib(DB01268)	TTTCTCAGTCGCAGGTAACCC	0.398													5	71					0	0	0.000602	0	0	
RXFP2	122042	broad.mit.edu	37	13	32355867	32355867	+	Missense_Mutation	SNP	C	T	T	rs144275111		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:32355867C>T	uc001utt.2	+	10	916	c.845C>T	c.(844-846)TCG>TTG	p.S282L	RXFP2_uc010aba.2_Missense_Mutation_p.S265L	NM_130806	NP_570718	Q8WXD0	RXFP2_HUMAN	relaxin/insulin-like family peptide receptor 2	282	LRR 7.|Extracellular (Potential).					integral to membrane|plasma membrane					0		Lung SC(185;0.0262)		all cancers(112;0.000559)|Epithelial(112;0.0017)|OV - Ovarian serous cystadenocarcinoma(117;0.0145)|BRCA - Breast invasive adenocarcinoma(63;0.0535)		TCGTGCGATTCGCTCACAGTG	0.323													12	39					0	0	0.004007	0	0	
FRY	10129	broad.mit.edu	37	13	32747622	32747622	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:32747622G>A	uc001utx.2	+	19	2766	c.2270G>A	c.(2269-2271)CGC>CAC	p.R757H	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	757					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		GTGGCCACACGCAAACTGTCC	0.468													31	72					0	0	0.002445	0	0	
FRY	10129	broad.mit.edu	37	13	32821627	32821627	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:32821627C>T	uc001utx.2	+	48	7492	c.6996C>T	c.(6994-6996)TTC>TTT	p.F2332F	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	2332					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		ACTTCCACTTCGATATTTCGG	0.393													8	73					0	0	0.003080	0	0	
BRCA2	675	broad.mit.edu	37	13	32906931	32906931	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:32906931T>G	uc001uub.1	+	10	1543	c.1316T>G	c.(1315-1317)TTT>TGT	p.F439C	BRCA2_uc001uua.1_Missense_Mutation_p.F316C	NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	439					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		AAGAAAGATTTTCTTACTTCA	0.358			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			6	161					0	0	0.001168	0	0	
BRCA2	675	broad.mit.edu	37	13	32912807	32912807	+	Missense_Mutation	SNP	G	A	A	rs80358666		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:32912807G>A	uc001uub.1	+	11	4542	c.4315G>A	c.(4315-4317)GCC>ACC	p.A1439T		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	1439	BRCA2 3.				cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		TATTAGTGTCGCCAAAGAGTC	0.289			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			24	76					0	0	0.004656	0	0	
BRCA2	675	broad.mit.edu	37	13	32930634	32930634	+	Missense_Mutation	SNP	G	A	A	rs56070345		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:32930634G>A	uc001uub.1	+	15	7732	c.7505G>A	c.(7504-7506)CGC>CAC	p.R2502H		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	2502	Interaction with FANCD2.		R -> H (in ovarian cancer; could be a polymorphism).|R -> C (in BC; unknown pathological significance).		cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		CAAAGGCAACGCGTCTTTCCA	0.408			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			7	160					0	0	0.004482	0	0	
BRCA2	675	broad.mit.edu	37	13	32944628	32944628	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:32944628G>A	uc001uub.1	+	19	8648	c.8421G>A	c.(8419-8421)TCG>TCA	p.S2807S		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	2807					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		CCTTATCATCGCTTTTCAGTG	0.398			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			20	46					0	0	0.003954	0	0	
BRCA2	675	broad.mit.edu	37	13	32953551	32953551	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:32953551C>T	uc001uub.1	+	22	9079	c.8852C>T	c.(8851-8853)GCC>GTC	p.A2951V		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	2951			A -> T.		cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		ATTAGGAAGGCCATGGAATCT	0.383			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			32	72					0	0	0.002836	0	0	
PDS5B	23047	broad.mit.edu	37	13	33344393	33344393	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:33344393C>T	uc010abf.2	+	32	3917	c.3759C>T	c.(3757-3759)GGC>GGT	p.G1253G	PDS5B_uc010abg.2_RNA	NM_015032	NP_055847	Q9NTI5	PDS5B_HUMAN	PDS5, regulator of cohesion maintenance, homolog	1253	A.T hook 1.				cell division|cell proliferation|mitotic sister chromatid cohesion|negative regulation of cell proliferation	chromatin|nucleus	ATP binding|DNA binding|identical protein binding			ovary(2)|lung(1)|pancreas(1)	4		Lung SC(185;0.0367)		all cancers(112;5.55e-06)|Epithelial(112;2.7e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00303)|BRCA - Breast invasive adenocarcinoma(63;0.0204)		GGAAAAGAGGCCATACGGCTT	0.443													26	88					0	0	0.002445	0	0	
STARD13	90627	broad.mit.edu	37	13	33686932	33686932	+	Silent	SNP	C	T	T	rs145394840		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:33686932C>T	uc001uuw.2	-	9	2544	c.2418G>A	c.(2416-2418)ACG>ACA	p.T806T	STARD13_uc001uuu.2_Silent_p.T798T|STARD13_uc001uuv.2_Silent_p.T688T|STARD13_uc001uux.2_Silent_p.T771T|STARD13_uc010tec.1_RNA	NM_178006	NP_821074	Q9Y3M8	STA13_HUMAN	StAR-related lipid transfer (START) domain	806	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|lipid particle|mitochondrial membrane	GTPase activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4	all_epithelial(80;0.155)	Lung SC(185;0.0367)		all cancers(112;1.31e-05)|Epithelial(112;0.000142)|BRCA - Breast invasive adenocarcinoma(63;0.00936)|OV - Ovarian serous cystadenocarcinoma(117;0.0533)|Lung(94;0.143)|GBM - Glioblastoma multiforme(144;0.143)		GGTTCATGGGCGTCATCTGAT	0.498													19	64					0	0	0.007413	0	0	
SOHLH2	54937	broad.mit.edu	37	13	36767810	36767810	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:36767810C>T	uc001uvj.2	-	4	467	c.378G>A	c.(376-378)ATG>ATA	p.M126I	SOHLH2_uc010tei.1_Missense_Mutation_p.M203I	NM_017826	NP_060296	Q9NX45	SOLH2_HUMAN	spermatogenesis and oogenesis specific basic	126					cell differentiation|multicellular organismal development|oogenesis|regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	DNA binding				0		Breast(139;0.0615)|Lung SC(185;0.0743)|Prostate(109;0.184)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;4.63e-08)|Epithelial(112;2.67e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00272)|BRCA - Breast invasive adenocarcinoma(63;0.00685)|GBM - Glioblastoma multiforme(144;0.0273)		TCATTTTTTCCATTGTCAGTG	0.303													22	59					0	0	0.003954	0	0	
SPG20	23111	broad.mit.edu	37	13	36878523	36878523	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:36878523C>T	uc001uvn.2	-	10	2250	c.1980G>A	c.(1978-1980)GAG>GAA	p.E660E	SPG20_uc010ten.1_Silent_p.E650E|SPG20_uc001uvm.2_Silent_p.E660E|SPG20_uc001uvo.2_Silent_p.E660E|SPG20_uc001uvq.2_Silent_p.E660E	NM_001142296	NP_001135768	Q8N0X7	SPG20_HUMAN	spartin	660					cell death	cytoplasm	ubiquitin protein ligase binding				0		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;2.42e-08)|Epithelial(112;1.58e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00128)|BRCA - Breast invasive adenocarcinoma(63;0.0125)|GBM - Glioblastoma multiforme(144;0.026)		TCTTCTTTGCCTCCTTTACTT	0.388													42	118					0	0	0.002522	0	0	
CCNA1	8900	broad.mit.edu	37	13	37014191	37014191	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:37014191A>G	uc001uvr.3	+	6	1319	c.969A>G	c.(967-969)CAA>CAG	p.Q323Q	CCNA1_uc010teo.1_Silent_p.Q279Q|CCNA1_uc010abq.2_Silent_p.Q279Q|CCNA1_uc010abp.2_Silent_p.Q279Q|CCNA1_uc001uvs.3_Silent_p.Q322Q|CCNA1_uc010abr.2_RNA	NM_003914	NP_003905	P78396	CCNA1_HUMAN	cyclin A1 isoform a	323					cell division|G2/M transition of mitotic cell cycle|male meiosis I|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle|spermatogenesis	cytosol|microtubule cytoskeleton|nucleoplasm	protein kinase binding			lung(2)|skin(2)|ovary(1)	5		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.91e-07)|Epithelial(112;1.22e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0119)|GBM - Glioblastoma multiforme(144;0.0242)		CAAAACGACAACTGTTAAAAA	0.403													18	65					0	0	0.006122	0	0	
FREM2	341640	broad.mit.edu	37	13	39262274	39262274	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:39262274C>T	uc001uwv.2	+	1	1102	c.793C>T	c.(793-795)CGC>TGC	p.R265C		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	265	Extracellular (Potential).				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		ACTAGGCGTGCGCTATCGCCA	0.627													5	36					0	0	0.001168	0	0	
LHFP	10186	broad.mit.edu	37	13	40175124	40175124	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:40175124A>G	uc001uxf.2	-	2	741	c.230T>C	c.(229-231)ATC>ACC	p.I77T		NM_005780	NP_005771	Q9Y693	LHFP_HUMAN	lipoma HMGIC fusion partner precursor	77						integral to membrane	DNA binding		HMGA2/LHFP(2)	soft_tissue(2)|lung(1)|breast(1)	4		Lung NSC(96;3.55e-06)|Breast(139;0.00408)|Ovarian(182;0.0107)|Prostate(109;0.0118)|Lung SC(185;0.0719)|Hepatocellular(188;0.114)		OV - Ovarian serous cystadenocarcinoma(117;6.48e-46)|Epithelial(112;8.43e-42)|all cancers(112;1.42e-36)|GBM - Glioblastoma multiforme(144;0.00187)|BRCA - Breast invasive adenocarcinoma(63;0.00886)|KIRC - Kidney renal clear cell carcinoma(186;0.048)|Kidney(163;0.0601)|LUSC - Lung squamous cell carcinoma(192;0.105)		TGCGCTGGGGATGCCCTGGAA	0.592			T	HMGA2	lipoma								6	148					0	0	0.001168	0	0	
FOXO1	2308	broad.mit.edu	37	13	41134254	41134254	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:41134254C>T	uc001uxl.3	-	2	1759	c.1374G>A	c.(1372-1374)GCG>GCA	p.A458A	FOXO1_uc010acc.1_Silent_p.A273A	NM_002015	NP_002006	Q12778	FOXO1_HUMAN	forkhead box O1	458					anti-apoptosis|blood vessel development|embryo development|endocrine pancreas development|insulin receptor signaling pathway|negative regulation of stress-activated MAPK cascade|nerve growth factor receptor signaling pathway|pattern specification process|phosphatidylinositol-mediated signaling|positive regulation of transcription from RNA polymerase II promoter|regulation of cell proliferation|regulation of sequence-specific DNA binding transcription factor activity|response to DNA damage stimulus|tissue development	cytosol|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein kinase binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding		PAX3/FOXO1(749)|PAX7/FOXO1(197)	soft_tissue(946)|lung(1)|central_nervous_system(1)	948		Lung NSC(96;1.18e-05)|Breast(139;0.00394)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(188;0.194)		all cancers(112;7.32e-09)|Epithelial(112;2.87e-06)|OV - Ovarian serous cystadenocarcinoma(117;6.98e-05)|GBM - Glioblastoma multiforme(144;0.00394)|BRCA - Breast invasive adenocarcinoma(63;0.0815)		AGAGTCCAGGCGCACAGTTAT	0.502													10	40					0	0	0.006214	0	0	
KBTBD6	89890	broad.mit.edu	37	13	41705170	41705170	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:41705170C>T	uc001uxu.1	-	1	1767	c.1478G>A	c.(1477-1479)CGC>CAC	p.R493H	KBTBD6_uc010ace.1_Intron|KBTBD6_uc010tfe.1_Missense_Mutation_p.R427H|uc001uxv.1_5'Flank	NM_152903	NP_690867	Q86V97	KBTB6_HUMAN	kelch repeat and BTB (POZ) domain-containing 6	493	Kelch 3.						protein binding			ovary(1)|skin(1)	2		Lung NSC(96;4.52e-06)|Breast(139;0.00123)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		all cancers(112;4.08e-09)|Epithelial(112;4.74e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000131)|GBM - Glioblastoma multiforme(144;0.000876)|BRCA - Breast invasive adenocarcinoma(63;0.0673)		ACAGAACATGCGCTTACTGTT	0.448													6	60					0	0	0.001168	0	0	
KBTBD6	89890	broad.mit.edu	37	13	41705357	41705357	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:41705357C>T	uc001uxu.1	-	1	1580	c.1291G>A	c.(1291-1293)GCA>ACA	p.A431T	KBTBD6_uc010ace.1_Intron|KBTBD6_uc010tfe.1_Missense_Mutation_p.A365T|uc001uxv.1_5'Flank	NM_152903	NP_690867	Q86V97	KBTB6_HUMAN	kelch repeat and BTB (POZ) domain-containing 6	431	Kelch 1.						protein binding			ovary(1)|skin(1)	2		Lung NSC(96;4.52e-06)|Breast(139;0.00123)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		all cancers(112;4.08e-09)|Epithelial(112;4.74e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000131)|GBM - Glioblastoma multiforme(144;0.000876)|BRCA - Breast invasive adenocarcinoma(63;0.0673)		TTGAGATATGCCACATCCATG	0.483													27	91					0	0	0.002096	0	0	
MTRF1	9617	broad.mit.edu	37	13	41834827	41834827	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:41834827T>C	uc001uxx.2	-	4	687	c.217A>G	c.(217-219)AAA>GAA	p.K73E	MTRF1_uc001uxy.2_Missense_Mutation_p.K73E|MTRF1_uc001uxz.2_Translation_Start_Site|MTRF1_uc010tff.1_Missense_Mutation_p.K86E|MTRF1_uc001uyc.1_Missense_Mutation_p.K73E	NM_004294	NP_004285	O75570	RF1M_HUMAN	mitochondrial translational release factor 1	73					regulation of translational termination	mitochondrion	translation release factor activity, codon specific				0		Lung NSC(96;4.52e-06)|Breast(139;0.00123)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)|Ovarian(182;0.125)		OV - Ovarian serous cystadenocarcinoma(117;4.24e-10)|all cancers(112;2.05e-09)|Epithelial(112;2.48e-09)|GBM - Glioblastoma multiforme(144;0.00115)|BRCA - Breast invasive adenocarcinoma(63;0.0721)|KIRC - Kidney renal clear cell carcinoma(186;0.248)		TGTAGTGCTTTATGCTTCCAG	0.408													14	164					0	0	0.001855	0	0	
KIAA0564	23078	broad.mit.edu	37	13	42465597	42465597	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:42465597G>A	uc001uyj.2	-	5	680	c.610C>T	c.(610-612)CGC>TGC	p.R204C	KIAA0564_uc001uyk.2_Missense_Mutation_p.R204C	NM_015058	NP_055873	A3KMH1	K0564_HUMAN	hypothetical protein LOC23078 isoform a	204						extracellular region	ATP binding|ATPase activity			ovary(3)|upper_aerodigestive_tract(1)|kidney(1)|skin(1)	6		Lung NSC(96;4.61e-06)|Prostate(109;0.0167)|Lung SC(185;0.0262)|Breast(139;0.0854)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000368)|GBM - Glioblastoma multiforme(144;0.0033)|BRCA - Breast invasive adenocarcinoma(63;0.0969)		ATCAGGAAGCGTCCATCTTCA	0.438													43	95					0	0	0.003610	0	0	
DGKH	160851	broad.mit.edu	37	13	42793448	42793448	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:42793448C>T	uc001uyl.1	+	27	3317	c.3296C>T	c.(3295-3297)CCT>CTT	p.P1099L	DGKH_uc010tfh.1_Missense_Mutation_p.P1099L|DGKH_uc001uym.1_Missense_Mutation_p.P1099L|DGKH_uc010tfi.1_Missense_Mutation_p.P854L|DGKH_uc010tfj.1_Missense_Mutation_p.P954L|DGKH_uc001uyn.1_RNA|DGKH_uc001uyo.1_Missense_Mutation_p.P954L|DGKH_uc001uyp.2_RNA	NM_178009	NP_821077	Q86XP1	DGKH_HUMAN	diacylglycerol kinase, eta isoform 2	1099					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation|protein oligomerization	endosome|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(2)	2		Lung NSC(96;1.02e-05)|Prostate(109;0.0168)|Lung SC(185;0.0262)|Breast(139;0.0709)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;5.88e-05)|GBM - Glioblastoma multiforme(144;0.000935)|BRCA - Breast invasive adenocarcinoma(63;0.109)		ACAGAGATTCCTTGGCTTTAT	0.393													14	156					0	0	0.003163	0	0	
AKAP11	11215	broad.mit.edu	37	13	42875031	42875031	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:42875031G>A	uc001uys.1	+	8	2324	c.2149G>A	c.(2149-2151)GCA>ACA	p.A717T		NM_016248	NP_057332	Q9UKA4	AKA11_HUMAN	A-kinase anchor protein 11	717					intracellular protein kinase cascade	microtubule organizing center	protein kinase A binding|protein phosphatase 1 binding			ovary(1)|central_nervous_system(1)	2		Lung NSC(96;1.86e-05)|Prostate(109;0.0165)|Lung SC(185;0.0262)|Breast(139;0.0707)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000365)|GBM - Glioblastoma multiforme(144;0.00116)|BRCA - Breast invasive adenocarcinoma(63;0.19)		AACAAAGGCAGCAGTTAGTGT	0.403													42	79					0	0	0.002522	0	0	
AKAP11	11215	broad.mit.edu	37	13	42876608	42876608	+	Silent	SNP	G	A	A	rs149090364	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:42876608G>A	uc001uys.1	+	8	3901	c.3726G>A	c.(3724-3726)TCG>TCA	p.S1242S		NM_016248	NP_057332	Q9UKA4	AKA11_HUMAN	A-kinase anchor protein 11	1242					intracellular protein kinase cascade	microtubule organizing center	protein kinase A binding|protein phosphatase 1 binding			ovary(1)|central_nervous_system(1)	2		Lung NSC(96;1.86e-05)|Prostate(109;0.0165)|Lung SC(185;0.0262)|Breast(139;0.0707)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000365)|GBM - Glioblastoma multiforme(144;0.00116)|BRCA - Breast invasive adenocarcinoma(63;0.19)		GAAGTGTGTCGCCTACTTTTT	0.373													26	76					0	0	0.005443	0	0	
SLC25A30	253512	broad.mit.edu	37	13	45983111	45983111	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:45983111C>T	uc001vag.2	-	3	300	c.163G>A	c.(163-165)GCA>ACA	p.A55T	SLC25A30_uc010tfs.1_Intron|SLC25A30_uc001vah.2_Intron|SLC25A30_uc010tft.1_Missense_Mutation_p.A4T	NM_001010875	NP_001010875	Q5SVS4	KMCP1_HUMAN	solute carrier family 25, member 30	55	Solcar 1.				mitochondrial transport	integral to membrane|mitochondrial inner membrane	binding			breast(1)	1		Lung NSC(96;0.00227)|Prostate(109;0.00578)|Breast(56;0.0192)|Lung SC(185;0.0367)|Hepatocellular(98;0.0556)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;7.95e-05)		CTCACTAATGCGTGCAACATT	0.448													22	80					0	0	0.006320	0	0	
LCP1	3936	broad.mit.edu	37	13	46716466	46716466	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:46716466C>T	uc001vaz.3	-	13	1589	c.1463G>A	c.(1462-1464)CGC>CAC	p.R488H	LCP1_uc010ack.2_Missense_Mutation_p.R57H|LCP1_uc001vay.3_Missense_Mutation_p.R85H|LCP1_uc001vba.3_Missense_Mutation_p.R488H	NM_002298	NP_002289	P13796	PLSL_HUMAN	L-plastin	488	Actin-binding 2.|CH 3.				regulation of intracellular protein transport|T cell activation involved in immune response	cell junction|cytosol|ruffle membrane	calcium ion binding			lung(4)|ovary(3)	7		Lung NSC(96;1.27e-05)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;5.39e-05)		TGTGAGAGTGCGGTTTCCTTC	0.413			T	BCL6	NHL 								5	112					0	0	0.001984	0	0	
FNDC3A	22862	broad.mit.edu	37	13	49688825	49688825	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:49688825T>C	uc001vcm.2	+	4	515	c.210T>C	c.(208-210)GGT>GGC	p.G70G	FNDC3A_uc001vcl.1_Silent_p.G70G|FNDC3A_uc001vcn.2_Silent_p.G70G|FNDC3A_uc001vco.2_RNA|FNDC3A_uc001vcp.1_Silent_p.G14G|FNDC3A_uc001vcq.2_Silent_p.G14G	NM_001079673	NP_001073141	Q9Y2H6	FND3A_HUMAN	fibronectin type III domain containing 3A	70	Pro-rich.					Golgi membrane|integral to membrane				lung(2)	2		all_lung(13;7.44e-08)|Lung NSC(96;4.08e-06)|Breast(56;0.000111)|Prostate(109;0.00174)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;2.94e-09)		CCCCAAATGGTTCTGTGCCTC	0.373													7	194					0	0	0.006214	0	0	
ARL11	115761	broad.mit.edu	37	13	50204926	50204926	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:50204926G>A	uc001vdf.1	+	2	489	c.343G>A	c.(343-345)GTC>ATC	p.V115I		NM_138450	NP_612459	Q969Q4	ARL11_HUMAN	ADP-ribosylation factor-like 11	115					small GTPase mediated signal transduction	intracellular	GTP binding|protein binding				0		Lung NSC(96;2.1e-05)|Breast(56;0.00015)|Prostate(109;0.00174)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.119)|Kidney(9;0.169)	GBM - Glioblastoma multiforme(99;1.67e-09)		CATGGCTGGCGTCCCCTTCTT	0.567													27	39					0	0	0.009535	0	0	
C13orf1	57213	broad.mit.edu	37	13	50505205	50505205	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:50505205C>T	uc001vdl.2	-	2	434	c.172G>A	c.(172-174)GCA>ACA	p.A58T	C13orf1_uc001vdm.2_Intron|C13orf1_uc010tgm.1_Intron|C13orf1_uc010adj.2_Missense_Mutation_p.A58T	NM_020456	NP_065189	Q5W111	SPRY7_HUMAN	chromosome 13 open reading frame 1 isoform 1	58	B30.2/SPRY.										0		Lung NSC(96;7.5e-06)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)|Acute lymphoblastic leukemia(7;0.117)		GBM - Glioblastoma multiforme(99;1.72e-10)|COAD - Colon adenocarcinoma(199;0.208)		TGTAAAGGTGCGCTGGCTAAA	0.323													12	44					0	0	0.000978	0	0	
FAM124A	220108	broad.mit.edu	37	13	51855296	51855296	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:51855296C>T	uc001vfg.1	+	4	1676	c.1545C>T	c.(1543-1545)TGC>TGT	p.C515C	FAM124A_uc001vff.1_Silent_p.C551C	NM_145019	NP_659456	Q86V42	F124A_HUMAN	hypothetical protein LOC220108	515										central_nervous_system(1)	1		Acute lymphoblastic leukemia(7;0.000334)|Breast(56;0.00156)|Prostate(109;0.00538)|Lung NSC(96;0.0216)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;4.25e-07)		AGCTCCCATGCGATACCCCCA	0.597													5	43					0	0	0.001168	0	0	
INTS6	26512	broad.mit.edu	37	13	51953678	51953678	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:51953678C>T	uc001vfk.2	-	11	1920	c.1306G>A	c.(1306-1308)GCA>ACA	p.A436T	INTS6_uc001vfi.2_Missense_Mutation_p.A120T|INTS6_uc001vfj.2_Missense_Mutation_p.A423T|INTS6_uc001vfl.2_Missense_Mutation_p.A258T	NM_012141	NP_036273	Q9UL03	INT6_HUMAN	integrator complex subunit 6 isoform a	436					snRNA processing	actin cytoskeleton|integrator complex	protein binding|transmembrane receptor activity			ovary(1)|lung(1)	2		Breast(56;0.000286)|Lung NSC(96;0.00145)|Prostate(109;0.00403)|Hepatocellular(98;0.065)|Myeloproliferative disorder(33;0.163)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;7.7e-08)		AGGTTAGGTGCTCCCATCATC	0.338													19	67					0	0	0.002299	0	0	
CCDC70	83446	broad.mit.edu	37	13	52439935	52439935	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:52439935G>A	uc001vfu.3	+	2	717	c.421G>A	c.(421-423)GCC>ACC	p.A141T	uc010tgr.1_RNA	NM_031290	NP_112580	Q6NSX1	CCD70_HUMAN	coiled-coil domain containing 70 precursor	141	Potential.					extracellular region|plasma membrane					0		Breast(56;0.000207)|Lung NSC(96;0.00145)|Prostate(109;0.0107)|Hepatocellular(98;0.065)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;2.4e-08)		AGAGGACAATGCCTTATGGGA	0.507													9	186					0	0	0.006214	0	0	
UTP14C	9724	broad.mit.edu	37	13	52603935	52603935	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:52603935T>C	uc001vgb.2	+	2	1530	c.995T>C	c.(994-996)CTG>CCG	p.L332P	UTP14C_uc001vgc.2_RNA	NM_021645	NP_067677	Q5TAP6	UT14C_HUMAN	UTP14, U3 small nucleolar ribonucleoprotein,	332	Potential.				cell differentiation|meiosis|multicellular organismal development|rRNA processing|spermatogenesis	nucleolus|small-subunit processome				ovary(3)|large_intestine(1)|breast(1)	5		Breast(56;0.00173)|Lung NSC(96;0.0108)|Prostate(109;0.0412)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;2.3e-08)		AACAAAGAACTGACACAGAAA	0.498													19	89					0	0	0.002780	0	0	
THSD1	55901	broad.mit.edu	37	13	52960256	52960256	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:52960256G>A	uc001vgo.2	-	4	1632	c.1087C>T	c.(1087-1089)CGT>TGT	p.R363C	THSD1_uc001vgp.2_Intron|THSD1_uc010tgz.1_5'UTR|THSD1_uc010aea.2_Intron	NM_018676	NP_061146	Q9NS62	THSD1_HUMAN	thrombospondin type I domain-containing 1	363	Extracellular (Potential).|TSP type-1.					extracellular region|integral to membrane|intracellular membrane-bounded organelle				ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		Breast(56;0.000207)|Lung NSC(96;0.00145)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.8e-08)		ACTCGGCGACGCTCTCTGACA	0.542													22	63					0	0	0.008361	0	0	
LECT1	11061	broad.mit.edu	37	13	53282677	53282677	+	Silent	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:53282677A>C	uc001vhf.2	-	6	894	c.783T>G	c.(781-783)CCT>CCG	p.P261P	LECT1_uc001vhg.2_Silent_p.P261P|LECT1_uc001vhh.2_Silent_p.P250P	NM_007015	NP_008946	O75829	LECT1_HUMAN	leukocyte cell derived chemotaxin 1 isoform 1	261					cartilage development|proteoglycan metabolic process	endomembrane system|extracellular region|integral to membrane				ovary(2)	2		Lung NSC(96;0.00212)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;3.38e-08)		GCACATGATAAGGATTATCAG	0.368													16	26					0	0	0.006122	0	0	
PCDH8	5100	broad.mit.edu	37	13	53418988	53418988	+	Missense_Mutation	SNP	C	T	T	rs141509995		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:53418988C>T	uc001vhi.2	-	3	3123	c.2920G>A	c.(2920-2922)GCA>ACA	p.A974T	PCDH8_uc001vhj.2_Missense_Mutation_p.A877T	NM_002590	NP_002581	O95206	PCDH8_HUMAN	protocadherin 8 isoform 1 precursor	974	Cytoplasmic (Potential).				cell-cell signaling|homophilic cell adhesion	cell junction|dendrite|integral to plasma membrane|postsynaptic membrane|presynaptic membrane	calcium ion binding			breast(1)	1		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)		GATGGATGTGCGTTGGGCCCG	0.597													17	24					0	0	0.003330	0	0	
OLFM4	10562	broad.mit.edu	37	13	53624246	53624246	+	Silent	SNP	G	A	A	rs147184057		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:53624246G>A	uc001vhl.2	+	5	873	c.873G>A	c.(871-873)GCG>GCA	p.A291A	OLFM4_uc001vhk.1_Intron	NM_006418	NP_006409	Q6UX06	OLFM4_HUMAN	olfactomedin 4 precursor	291	Olfactomedin-like.				cell adhesion	extracellular space				skin(1)	1		Breast(56;0.000776)|Lung NSC(96;0.000814)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;3.13e-08)		ATTGGGTGGCGCCATTGAATA	0.448													5	62					0	0	0.000602	0	0	
PCDH17	27253	broad.mit.edu	37	13	58208511	58208511	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:58208511C>T	uc001vhq.1	+	1	2723	c.1831C>T	c.(1831-1833)CGC>TGC	p.R611C	PCDH17_uc010aec.1_Missense_Mutation_p.R611C	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	611	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		GAGCACTGTGCGCGCCCTAGA	0.657													5	18					0	0	0.001168	0	0	
PCDH20	64881	broad.mit.edu	37	13	61986229	61986229	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:61986229G>T	uc001vid.3	-	2	2367	c.2003C>A	c.(2002-2004)GCT>GAT	p.A668D	PCDH20_uc010thj.1_Missense_Mutation_p.A668D	NM_022843	NP_073754	Q8N6Y1	PCD20_HUMAN	protocadherin 20	641	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|breast(1)|central_nervous_system(1)	6		Breast(118;0.195)|Prostate(109;0.229)		GBM - Glioblastoma multiforme(99;0.000118)		ATTTCGTCCAGCGTCAGCATC	0.448													15	63					1.67942e-08	1.7964e-08	0.006122	1	0	
DACH1	1602	broad.mit.edu	37	13	72049901	72049901	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:72049901G>A	uc010thn.1	-	10	2374	c.1951C>T	c.(1951-1953)CGT>TGT	p.R651C	DACH1_uc010tho.1_Missense_Mutation_p.R503C|DACH1_uc010thp.1_Missense_Mutation_p.R449C	NM_080759	NP_542937	Q9UI36	DACH1_HUMAN	dachshund homolog 1 isoform a	703	Potential.|Interaction with SIN3A (By similarity).				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|nucleotide binding|protein binding			breast(1)	1		Acute lymphoblastic leukemia(28;0.0503)|Breast(118;0.198)		GBM - Glioblastoma multiforme(99;0.00032)		GCTTGTTCACGCCGTTTCGTC	0.403													11	167					0	0	0.008291	0	0	
C13orf34	79866	broad.mit.edu	37	13	73321194	73321194	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:73321194G>A	uc001viv.1	+	10	1546	c.1427G>A	c.(1426-1428)TGC>TAC	p.C476Y	C13orf34_uc010thq.1_Missense_Mutation_p.C251Y|C13orf34_uc010aen.1_Missense_Mutation_p.C551Y|C13orf34_uc010thr.1_Missense_Mutation_p.C406Y|C13orf34_uc001viw.1_Missense_Mutation_p.C425Y	NM_024808	NP_079084	Q6PGQ7	BORA_HUMAN	aurora borealis	476					cell division|mitosis|regulation of mitosis|regulation of mitotic spindle organization|regulation of protein localization		protein kinase binding				0		Breast(118;0.0735)		GBM - Glioblastoma multiforme(99;0.000227)		TCTCATATGTGCATGTCACCT	0.423													37	163					0	0	0.006999	0	0	
LOC647288	647288	broad.mit.edu	37	13	75814354	75814354	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:75814354C>G	uc010ths.1	-	1	164	c.123G>C	c.(121-123)TGG>TGC	p.W41C		NR_027466				Homo sapiens mRNA; cDNA DKFZp434F0327 (from clone DKFZp434F0327).												0						CCACCAGTTCCCATGGAAAAC	0.488													3	51					0	0	0.000602	0	0	
LMO7	4008	broad.mit.edu	37	13	76379754	76379754	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:76379754C>T	uc001vjv.2	+	6	1115	c.355C>T	c.(355-357)CGC>TGC	p.R119C	LMO7_uc010thv.1_Intron|LMO7_uc001vjt.1_Intron|LMO7_uc010thw.1_Intron|LMO7_uc001vjw.1_Intron	NM_015842	NP_056667	Q8WWI1	LMO7_HUMAN	LIM domain only 7 isoform 2	404						cytoplasm|nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)|prostate(1)|skin(1)	5		Breast(118;0.0992)		GBM - Glioblastoma multiforme(99;0.0109)		TCTTTATGTGCGCAAGCTCAG	0.413													74	283					0	0	0.003610	0	0	
LMO7	4008	broad.mit.edu	37	13	76391408	76391408	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:76391408G>A	uc001vjv.2	+	9	2119	c.1359G>A	c.(1357-1359)TGG>TGA	p.W453*	LMO7_uc010thv.1_Nonsense_Mutation_p.W404*|LMO7_uc001vjt.1_Nonsense_Mutation_p.W352*|LMO7_uc010thw.1_Nonsense_Mutation_p.W303*|LMO7_uc001vjw.1_Nonsense_Mutation_p.W359*	NM_015842	NP_056667	Q8WWI1	LMO7_HUMAN	LIM domain only 7 isoform 2	738						cytoplasm|nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)|prostate(1)|skin(1)	5		Breast(118;0.0992)		GBM - Glioblastoma multiforme(99;0.0109)		ATCAGAAATGGCAGGATGTGA	0.393													28	75					0	0	0.002445	0	0	
LMO7	4008	broad.mit.edu	37	13	76408509	76408509	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:76408509G>A	uc001vjv.2	+	14	3273	c.2513G>A	c.(2512-2514)CGC>CAC	p.R838H	LMO7_uc010thv.1_Missense_Mutation_p.R789H|LMO7_uc001vjt.1_Missense_Mutation_p.R737H|LMO7_uc010thw.1_Missense_Mutation_p.R688H|LMO7_uc001vjw.1_Missense_Mutation_p.R744H	NM_015842	NP_056667	Q8WWI1	LMO7_HUMAN	LIM domain only 7 isoform 2	1123	PDZ.					cytoplasm|nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)|prostate(1)|skin(1)	5		Breast(118;0.0992)		GBM - Glioblastoma multiforme(99;0.0109)		GATGTGAGGCGCTATGGAAAG	0.448													8	86					0	0	0.004482	0	0	
FBXL3	26224	broad.mit.edu	37	13	77592810	77592810	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:77592810C>T	uc001vkd.2	-	3	767	c.396G>A	c.(394-396)TCG>TCA	p.S132S		NM_012158	NP_036290	Q9UKT7	FBXL3_HUMAN	F-box and leucine-rich repeat protein 3	132	LRR 1.				regulation of circadian rhythm|rhythmic process|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|SCF ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity				0		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.218)		GBM - Glioblastoma multiforme(99;0.0521)		TCACAAGTTGCGATAGTATAT	0.333													8	64					0	0	0.003080	0	0	
MYCBP2	23077	broad.mit.edu	37	13	77642784	77642784	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:77642784G>A	uc001vkf.2	-	71	12064	c.11973C>T	c.(11971-11973)GGC>GGT	p.G3991G	MYCBP2_uc010aev.2_Silent_p.G3395G|MYCBP2_uc001vke.2_Silent_p.G608G	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	3991					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		GATATTGCCGGCCAACGTTAG	0.493													8	39					0	0	0.004482	0	0	
MYCBP2	23077	broad.mit.edu	37	13	77807298	77807298	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:77807298C>T	uc001vkf.2	-	19	2707	c.2616G>A	c.(2614-2616)AAG>AAA	p.K872K	MYCBP2_uc010aev.2_Silent_p.K276K	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	872	RCC1 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		TACCTTTGTGCTTGTCCCGTT	0.438													14	178					0	0	0.004007	0	0	
SCEL	8796	broad.mit.edu	37	13	78130752	78130752	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:78130752G>T	uc001vki.2	+	3	235	c.65G>T	c.(64-66)GGA>GTA	p.G22V	SCEL_uc001vkj.2_Missense_Mutation_p.G22V|SCEL_uc010thx.1_Missense_Mutation_p.G22V	NM_144777	NP_659001	O95171	SCEL_HUMAN	sciellin isoform 1	22					embryo development|keratinocyte differentiation	cornified envelope|cytoplasm|membrane	protein binding|zinc ion binding			ovary(4)|breast(1)	5		Acute lymphoblastic leukemia(28;0.0282)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0233)		ACCACTCAGGGAACCACACGG	0.423													19	272					9.95505e-16	1.08417e-15	0.002299	1	0	
SCEL	8796	broad.mit.edu	37	13	78188060	78188060	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:78188060T>C	uc001vki.2	+	24	1591	c.1421T>C	c.(1420-1422)GTC>GCC	p.V474A	SCEL_uc001vkj.2_Missense_Mutation_p.V454A|SCEL_uc010thx.1_Missense_Mutation_p.V432A	NM_144777	NP_659001	O95171	SCEL_HUMAN	sciellin isoform 1	474	16 X approximate tandem repeats.|12.				embryo development|keratinocyte differentiation	cornified envelope|cytoplasm|membrane	protein binding|zinc ion binding			ovary(4)|breast(1)	5		Acute lymphoblastic leukemia(28;0.0282)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0233)		CATATTAATGTCAGCCCCAAA	0.338													6	110					0	0	0.003080	0	0	
EDNRB	1910	broad.mit.edu	37	13	78492681	78492681	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:78492681G>A	uc001vko.2	-	1	286	c.28C>T	c.(28-30)CGC>TGC	p.R10C	uc001vks.2_5'Flank|EDNRB_uc001vkq.1_Missense_Mutation_p.R10C|EDNRB_uc010aez.1_Missense_Mutation_p.R10C|EDNRB_uc001vkp.1_Missense_Mutation_p.R93C|EDNRB_uc010afa.1_Missense_Mutation_p.R10C	NM_001122659	NP_001116131	P24530	EDNRB_HUMAN	endothelin receptor type B isoform 1 precursor	10				R -> P (in Ref. 3; AAB19411).	activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|enteric nervous system development|enteric smooth muscle cell differentiation|macrophage chemotaxis|negative regulation of adenylate cyclase activity|negative regulation of cellular protein metabolic process|negative regulation of neuron maturation|negative regulation of transcription from RNA polymerase II promoter|vein smooth muscle contraction	integral to plasma membrane	endothelin-B receptor activity|peptide hormone binding				0		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0933)	Bosentan(DB00559)	ACCAGGGCGCGTCCGCACAGA	0.647											OREG0022452	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	12					0	0	0.004482	0	0	
POU4F1	5457	broad.mit.edu	37	13	79175910	79175910	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:79175910G>A	uc001vkv.2	-	2	1134	c.900C>T	c.(898-900)GGC>GGT	p.G300G	uc001vku.1_Intron	NM_006237	NP_006228	Q01851	PO4F1_HUMAN	POU domain, class 4, transcription factor 1	300	POU-specific.				axonogenesis|regulation of transcription from RNA polymerase II promoter|synapse assembly	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.0848)		GBM - Glioblastoma multiforme(99;0.129)		GTGAGCCCACGCCCGGGATCT	0.662													6	9					0	0	0.001984	0	0	
RBM26	64062	broad.mit.edu	37	13	79943029	79943029	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:79943029C>T	uc001vkz.2	-	6	745	c.731G>A	c.(730-732)GGC>GAC	p.G244D	RBM26_uc001vky.2_Missense_Mutation_p.G244D|RBM26_uc001vla.2_Missense_Mutation_p.G244D|RBM26_uc001vkx.2_5'UTR|RBM26_uc001vlb.1_RNA	NM_022118	NP_071401	Q5T8P6	RBM26_HUMAN	RNA binding motif protein 26	244					mRNA processing		nucleotide binding|protein binding|RNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(28;0.0279)		GBM - Glioblastoma multiforme(99;0.0188)		AGGGTAGTGGCCAGATGAAAT	0.398													7	117					0	0	0.001984	0	0	
SLITRK6	84189	broad.mit.edu	37	13	86369760	86369760	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:86369760C>T	uc001vll.1	-	2	1343	c.884G>A	c.(883-885)CGC>CAC	p.R295H	SLITRK6_uc010afe.1_Missense_Mutation_p.R60H	NM_032229	NP_115605	Q9H5Y7	SLIK6_HUMAN	slit and trk like 6 precursor	295	Extracellular (Potential).					integral to membrane				large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_neural(89;0.117)|Medulloblastoma(90;0.163)			GBM - Glioblastoma multiforme(99;0.0456)		AGTTGACATGCGACTATCATT	0.418													22	90					0	0	0.001882	0	0	
SLITRK5	26050	broad.mit.edu	37	13	88329951	88329951	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:88329951G>T	uc001vln.2	+	2	2527	c.2308G>T	c.(2308-2310)GGC>TGC	p.G770C	SLITRK5_uc010tic.1_Missense_Mutation_p.G529C	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	770	Cytoplasmic (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					CTCCCGAGAGGGCAACTCCGT	0.498													5	42					0.00198382	0.00206202	0.001984	1	0	
GPC5	2262	broad.mit.edu	37	13	92345910	92345910	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:92345910G>A	uc010tif.1	+	3	1161	c.795G>A	c.(793-795)GCG>GCA	p.A265A		NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor	265						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)	5	all_cancers(3;1.43e-07)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	Lung NSC(4;0.00454)				AAGGCCTGGCGCTCACTAAGC	0.542													11	48					0	0	0.003163	0	0	
GPC6	10082	broad.mit.edu	37	13	94958286	94958286	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:94958286G>A	uc001vlt.2	+	6	1693	c.1061G>A	c.(1060-1062)CGC>CAC	p.R354H	GPC6_uc010tig.1_Missense_Mutation_p.R354H	NM_005708	NP_005699	Q9Y625	GPC6_HUMAN	glypican 6 precursor	354						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding				0	all_neural(89;0.0684)|Medulloblastoma(90;0.163)	all_cancers(2;5.48e-07)|all_epithelial(2;5.69e-08)|all_lung(2;2.19e-05)|Lung NSC(4;6.09e-05)|Breast(118;0.0395)|Renal(2;0.0568)|Hepatocellular(115;0.217)				AGATCTGCCCGCTCAGCTCCT	0.478													11	138					0	0	0.000978	0	0	
DZIP1	22873	broad.mit.edu	37	13	96239899	96239899	+	Silent	SNP	C	T	T	rs111764824		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:96239899C>T	uc001vmk.2	-	20	2964	c.2112G>A	c.(2110-2112)CCG>CCA	p.P704P	DZIP1_uc001vmi.2_5'UTR|DZIP1_uc001vmj.2_Silent_p.P180P|DZIP1_uc001vml.2_Silent_p.P685P	NM_198968	NP_945319	Q86YF9	DZIP1_HUMAN	DAZ interacting protein 1 isoform 2	704					germ cell development|multicellular organismal development|spermatogenesis	cytoplasm|nucleus	nucleic acid binding|protein binding|zinc ion binding			ovary(2)	2	all_neural(89;0.0878)|Breast(111;0.148)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.141)			TTTGTGGTGGCGGCACAGGAA	0.567													5	35					0	0	0.001168	0	0	
HS6ST3	266722	broad.mit.edu	37	13	97485082	97485082	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:97485082C>T	uc001vmw.2	+	2	1070	c.1046C>T	c.(1045-1047)GCC>GTC	p.A349V		NM_153456	NP_703157	Q8IZP7	H6ST3_HUMAN	heparan sulfate 6-O-sulfotransferase 3	349	Lumenal (Potential).					integral to membrane	sulfotransferase activity			ovary(1)|skin(1)	2	all_neural(89;0.0878)|Medulloblastoma(90;0.163)					AAGAACATGGCCTTCTTTGGG	0.468													5	90					0	0	0.001168	0	0	
OXGR1	27199	broad.mit.edu	37	13	97639229	97639229	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:97639229A>C	uc001vmx.1	-	4	1029	c.785T>G	c.(784-786)GTC>GGC	p.V262G	OXGR1_uc010afr.1_Missense_Mutation_p.V262G	NM_080818	NP_543008	Q96P68	OXGR1_HUMAN	oxoglutarate (alpha-ketoglutarate) receptor 1	262	Helical; Name=6; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)|skin(1)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.186)			GATCCGAATGACCCTCAAGAT	0.438													5	73					0	0	0.001168	0	0	
MBNL2	10150	broad.mit.edu	37	13	98009823	98009823	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:98009823G>A	uc010aft.2	+	6	1708	c.892G>A	c.(892-894)GTC>ATC	p.V298I	MBNL2_uc001vmz.2_Missense_Mutation_p.V298I|MBNL2_uc001vna.2_Missense_Mutation_p.V298I|MBNL2_uc001vnb.2_RNA|MBNL2_uc010tij.1_Missense_Mutation_p.V143I|MBNL2_uc001vnc.2_Missense_Mutation_p.V31I	NM_144778	NP_659002	Q5VZF2	MBNL2_HUMAN	muscleblind-like 2 isoform 1	298					mRNA processing|regulation of RNA splicing|RNA splicing	cytoplasm|nucleus	RNA binding|zinc ion binding				0	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.218)			TAACCCCAGCGTCTTGCACTA	0.532													45	98					0	0	0.003610	0	0	
RNF113B	140432	broad.mit.edu	37	13	98829385	98829385	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:98829385G>A	uc001vnk.2	-	1	137	c.106C>T	c.(106-108)CGC>TGC	p.R36C	FARP1_uc001vnh.2_Intron|FARP1_uc001vni.2_Intron|FARP1_uc001vnj.2_Intron	NM_178861	NP_849192	Q8IZP6	R113B_HUMAN	ring finger protein 113B	36							nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.13)			CAGGCCGGGCGCTTTCTGAGG	0.687													7	9					0	0	0.003080	0	0	
FARP1	10160	broad.mit.edu	37	13	99042215	99042215	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:99042215C>T	uc001vnj.2	+	10	1196	c.860C>T	c.(859-861)GCG>GTG	p.A287V	FARP1_uc001vnh.2_Missense_Mutation_p.A287V	NM_005766	NP_005757	Q9Y4F1	FARP1_HUMAN	FERM, RhoGEF, and pleckstrin domain protein 1	287	FERM.				regulation of Rho protein signal transduction	cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			breast(2)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.233)			TTTTAGAGTGCGTACCAGGAT	0.413													6	80					0	0	0.004482	0	0	
TM9SF2	9375	broad.mit.edu	37	13	100172322	100172322	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:100172322G>A	uc001voj.1	+	3	405	c.272G>A	c.(271-273)CGC>CAC	p.R91H	TM9SF2_uc010afz.1_Missense_Mutation_p.R91H	NM_004800	NP_004791	Q99805	TM9S2_HUMAN	transmembrane 9 superfamily member 2 precursor	91	Lumenal (Potential).				transport	endosome membrane|integral to plasma membrane				ovary(1)	1	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.218)					GAAGGAAAGCGCCCATCTGAA	0.343													11	51					0	0	0.003163	0	0	
TM9SF2	9375	broad.mit.edu	37	13	100204534	100204534	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:100204534C>T	uc001voj.1	+	13	1575	c.1442C>T	c.(1441-1443)TCT>TTT	p.S481F	TM9SF2_uc010afz.1_Missense_Mutation_p.S316F	NM_004800	NP_004791	Q99805	TM9S2_HUMAN	transmembrane 9 superfamily member 2 precursor	481	Helical; (Potential).				transport	endosome membrane|integral to plasma membrane				ovary(1)	1	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.218)					TTCTGCATATCTGTGCCTCTG	0.393													44	94					0	0	0.003610	0	0	
PCCA	5095	broad.mit.edu	37	13	100909900	100909900	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:100909900G>A	uc001voo.2	+	9	727	c.689G>A	c.(688-690)CGC>CAC	p.R230H	PCCA_uc010aga.2_Missense_Mutation_p.R204H|PCCA_uc010tiz.1_Missense_Mutation_p.R230H	NM_000282	NP_000273	P05165	PCCA_HUMAN	propionyl-Coenzyme A carboxylase, alpha	230	ATP-grasp.|Biotin carboxylation.				fatty acid beta-oxidation	mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|enzyme binding|metal ion binding|propionyl-CoA carboxylase activity			skin(2)	2	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)				Biotin(DB00121)	AAAGGCATGCGCATTGCTTGG	0.443													4	18					0	0	0.004482	0	0	
NALCN	259232	broad.mit.edu	37	13	101720344	101720344	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:101720344C>T	uc001vox.1	-	39	4561	c.4372G>A	c.(4372-4374)GAG>AAG	p.E1458K		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	1458	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					AGCTGGTCCTCCTCAGTGGAA	0.343													17	32					0	0	0.007413	0	0	
NALCN	259232	broad.mit.edu	37	13	102029307	102029307	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:102029307C>T	uc001vox.1	-	5	665	c.476G>A	c.(475-477)CGA>CAA	p.R159Q	NALCN_uc001voy.2_5'UTR|NALCN_uc001voz.2_Missense_Mutation_p.R159Q|NALCN_uc001vpa.2_Missense_Mutation_p.R159Q	NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	159	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					CAGTTCAAATCGGAAATAAAT	0.373													17	46					0	0	0.004007	0	0	
ITGBL1	9358	broad.mit.edu	37	13	102359114	102359114	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:102359114A>G	uc001vpb.2	+	9	1360	c.1141A>G	c.(1141-1143)ACA>GCA	p.T381A	ITGBL1_uc010agb.2_Missense_Mutation_p.T332A|ITGBL1_uc001vpc.3_Missense_Mutation_p.T240A	NM_004791	NP_004782	O95965	ITGBL_HUMAN	integrin, beta-like 1 (with EGF-like repeat	381	VIII.|Cysteine-rich tandem repeats.				cell-matrix adhesion|integrin-mediated signaling pathway	extracellular region|integrin complex	binding|receptor activity			ovary(1)|skin(1)	2	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					AGGCCACGGCACATGTTCCTG	0.463													8	31					0	0	0.006214	0	0	
FGF14	2259	broad.mit.edu	37	13	102568812	102568812	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:102568812G>A	uc001vpe.2	-	1	184	c.184C>T	c.(184-186)CGG>TGG	p.R62W	FGF14_uc001vpf.2_Intron	NM_004115	NP_004106	Q92915	FGF14_HUMAN	fibroblast growth factor 14 isoform 1A	62					cell death|cell-cell signaling|JNK cascade|nervous system development|signal transduction	nucleus	growth factor activity|heparin binding			ovary(2)|lung(1)|large_intestine(1)	4	all_neural(89;0.0239)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					CCTTGGCGCCGCAACCTGCGC	0.652													7	23					0	0	0.003080	0	0	
TPP2	7174	broad.mit.edu	37	13	103286332	103286332	+	Missense_Mutation	SNP	C	T	T	rs2230855		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:103286332C>T	uc001vpi.3	+	11	1380	c.1277C>T	c.(1276-1278)GCG>GTG	p.A426V		NM_003291	NP_003282	P29144	TPP2_HUMAN	tripeptidyl peptidase II	426					proteolysis	cytoplasm|nucleus	aminopeptidase activity|serine-type endopeptidase activity|tripeptidyl-peptidase activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					AGTATCAGTGCGCCAGGAGGA	0.483													15	40					0	0	0.003163	0	0	
KDELC1	79070	broad.mit.edu	37	13	103445716	103445716	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:103445716G>A	uc001vpq.3	-	4	1031	c.647C>T	c.(646-648)GCC>GTC	p.A216V	KDELC1_uc001vpr.3_5'UTR	NM_024089	NP_076994	Q6UW63	KDEL1_HUMAN	KDEL (Lys-Asp-Glu-Leu) containing 1 precursor	216						endoplasmic reticulum lumen				ovary(1)	1	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					AAGTAGTATGGCATCCATGAA	0.299													16	60					0	0	0.008871	0	0	
MYO16	23026	broad.mit.edu	37	13	109792683	109792683	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:109792683C>T	uc001vqt.1	+	32	4183	c.4057C>T	c.(4057-4059)CGC>TGC	p.R1353C	MYO16_uc010agk.1_Missense_Mutation_p.R1375C	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	1353					cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			AAAGCCCAAGCGCAGCCCCAA	0.512													4	19					0	0	0.001168	0	0	
COL4A1	1282	broad.mit.edu	37	13	110827668	110827668	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:110827668C>T	uc001vqw.3	-	37	3217	c.3095G>A	c.(3094-3096)GGC>GAC	p.G1032D	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	1032	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			ACCTTGTGGGCCAGGGATGCC	0.502													11	29					0	0	0.002450	0	0	
COL4A1	1282	broad.mit.edu	37	13	110839556	110839556	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:110839556C>T	uc001vqw.3	-	25	1779	c.1657G>A	c.(1657-1659)GGC>AGC	p.G553S	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	553	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			CCTGTCATGCCGGGCTGTCCT	0.582													15	34					0	0	0.004007	0	0	
COL4A1	1282	broad.mit.edu	37	13	110859767	110859767	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:110859767C>T	uc001vqw.3	-	13	885	c.763G>A	c.(763-765)GCC>ACC	p.A255T	COL4A1_uc010agl.2_Missense_Mutation_p.A255T	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	255	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			CCCTTGGTGGCGAAGTCTCCT	0.413													7	61					0	0	0.004482	0	0	
COL4A2	1284	broad.mit.edu	37	13	111130478	111130478	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:111130478C>T	uc001vqx.2	+	30	2843	c.2554C>T	c.(2554-2556)CCC>TCC	p.P852S		NM_001846	NP_001837	P08572	CO4A2_HUMAN	alpha 2 type IV collagen preproprotein	852	Triple-helical region.				angiogenesis|axon guidance|extracellular matrix organization|negative regulation of angiogenesis	collagen type IV	extracellular matrix structural constituent|protein binding			skin(3)|central_nervous_system(2)|ovary(1)	6	all_cancers(4;2.21e-12)|all_epithelial(4;2.63e-07)|all_lung(23;5.81e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00323)|all_neural(89;0.0565)|Lung SC(71;0.0753)|Medulloblastoma(90;0.0922)	Breast(118;0.212)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.151)			CCAAGAGGGGCCCTTGGGGCT	0.642													5	16					0	0	0.000602	0	0	
CARS2	79587	broad.mit.edu	37	13	111319736	111319736	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:111319736G>A	uc001vrd.2	-	8	910	c.870C>T	c.(868-870)TGC>TGT	p.C290C	CARS2_uc010tjm.1_RNA	NM_024537	NP_078813	Q9HA77	SYCM_HUMAN	cysteinyl-tRNA synthetase 2, mitochondrial	290					cysteinyl-tRNA aminoacylation	cytosol|mitochondrial matrix	ATP binding|cysteine-tRNA ligase activity|metal ion binding				0	all_lung(23;3.61e-05)|Lung NSC(43;0.00144)|Lung SC(71;0.0753)|all_neural(89;0.077)|Medulloblastoma(90;0.148)		BRCA - Breast invasive adenocarcinoma(86;0.163)		L-Cysteine(DB00151)	GAAAGACTTCGCACTGTGCAA	0.388													7	80					0	0	0.003080	0	0	
PROZ	8858	broad.mit.edu	37	13	113826043	113826043	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:113826043C>T	uc001vta.1	+	8	834	c.827C>T	c.(826-828)GCG>GTG	p.A276V	PROZ_uc010agr.1_Missense_Mutation_p.A298V	NM_003891	NP_003882	P22891	PROZ_HUMAN	protein Z, vitamin K-dependent plasma	276	Peptidase S1.				blood coagulation|peptidyl-glutamic acid carboxylation|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen	calcium ion binding|serine-type endopeptidase activity				0	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.216)	all cancers(43;0.104)		Menadione(DB00170)	TGCCCAGGTGCGGGGCTCCCC	0.642													8	33					0	0	0.006214	0	0	
PCID2	55795	broad.mit.edu	37	13	113850537	113850537	+	Splice_Site	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:113850537G>A	uc010tju.1	-	5	349	c.268_splice	c.e5-1	p.S90_splice	PCID2_uc010tjv.1_Splice_Site_p.S90_splice|PCID2_uc010tjw.1_Splice_Site_p.Q89_splice|PCID2_uc001vte.2_5'UTR|PCID2_uc001vtd.2_5'UTR|PCID2_uc001vtf.2_5'UTR	NM_001127203	NP_001120675	Q5JVF3	PCID2_HUMAN	PCI domain containing 2						negative regulation of apoptosis|negative regulation of cysteine-type endopeptidase activity|positive regulation of mitotic cell cycle spindle assembly checkpoint|positive regulation of transcription, DNA-dependent|regulation of mRNA stability|spleen development		protein binding				0	Lung NSC(43;0.0161)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_lung(25;0.216)|all_epithelial(44;0.234)	all cancers(43;0.104)			CAAGAATGATGTACTGTATTA	0.338													5	99					0	0	0.000602	0	0	
LAMP1	3916	broad.mit.edu	37	13	113975905	113975905	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:113975905G>A	uc001vtm.1	+	8	1258	c.977G>A	c.(976-978)CGA>CAA	p.R326Q	LAMP1_uc010tka.1_Missense_Mutation_p.R273Q	NM_005561	NP_005552	P11279	LAMP1_HUMAN	lysosomal-associated membrane protein 1	326	Lumenal (Potential).|Second lumenal domain.					endosome membrane|integral to plasma membrane|lysosomal membrane|membrane fraction				central_nervous_system(2)	2	Lung NSC(43;0.0161)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0482)|all_epithelial(44;0.0148)|all_lung(25;0.0271)|Lung NSC(25;0.0977)|Breast(118;0.188)	all cancers(43;0.025)|GBM - Glioblastoma multiforme(44;0.206)|Epithelial(84;0.246)			GGCTCCCTGCGAGCGCTGCAG	0.493													9	27					0	0	0.008291	0	0	
GAS6	2621	broad.mit.edu	37	13	114526405	114526405	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:114526405G>A	uc001vud.2	-	13	1749	c.1596C>T	c.(1594-1596)GCC>GCT	p.A532A	GAS6_uc001vug.2_Silent_p.A233A|GAS6_uc001vuf.2_Silent_p.A259A	NM_000820	NP_000811	Q14393	GAS6_HUMAN	growth arrest-specific 6 isoform 1 precursor	575	Laminin G-like 2.				cell proliferation|leukocyte migration|peptidyl-glutamic acid carboxylation|platelet activation|platelet degranulation|positive regulation of ERK1 and ERK2 cascade|positive regulation of fibroblast proliferation|post-translational protein modification|proteolysis|regulation of growth	endoplasmic reticulum lumen|extracellular space|Golgi lumen|platelet alpha granule lumen	calcium ion binding|receptor agonist activity			central_nervous_system(4)	4	Lung NSC(43;0.00976)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0176)|all_epithelial(44;0.0104)|all_lung(25;0.0249)|Lung NSC(25;0.0908)|Breast(118;0.188)				AGAGAGGCACGGCACGGAGGT	0.627													14	28					0	0	0.001855	0	0	
OR4K5	79317	broad.mit.edu	37	14	20388997	20388997	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:20388997A>G	uc010tkw.1	+	1	232	c.232A>G	c.(232-234)ACC>GCC	p.T78A		NM_001005483	NP_001005483	Q8NGD3	OR4K5_HUMAN	olfactory receptor, family 4, subfamily K,	78	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TTCTTTTGCTACCCCTAAAAT	0.428													5	444					0	0	0.001168	0	0	
OR4K1	79544	broad.mit.edu	37	14	20404274	20404274	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:20404274C>T	uc001vwj.1	+	1	449	c.449C>T	c.(448-450)GCG>GTG	p.A150V		NM_001004063	NP_001004063	Q8NGD4	OR4K1_HUMAN	olfactory receptor, family 4, subfamily K,	150	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00124)		ATTTCCTGGGCGGTGGGCGTT	0.463													12	147					0	0	0.000978	0	0	
OR4K1	79544	broad.mit.edu	37	14	20404350	20404350	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:20404350T>C	uc001vwj.1	+	1	525	c.525T>C	c.(523-525)GAT>GAC	p.D175D		NM_001004063	NP_001004063	Q8NGD4	OR4K1_HUMAN	olfactory receptor, family 4, subfamily K,	175	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00124)		ATGAGGTGGATAGCTTCTTTT	0.453													27	142					0	0	0.002836	0	0	
TTC5	91875	broad.mit.edu	37	14	20763639	20763639	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:20763639C>T	uc001vwt.2	-	8	947	c.890G>A	c.(889-891)CGC>CAC	p.R297H	TTC5_uc001vwu.2_Missense_Mutation_p.R154H	NM_138376	NP_612385	Q8N0Z6	TTC5_HUMAN	tetratricopeptide repeat domain 5	297					DNA repair	cytoplasm|nucleus	binding			ovary(1)	1	all_cancers(95;0.00092)		Epithelial(56;1.1e-06)|all cancers(55;8.07e-06)	GBM - Glioblastoma multiforme(265;0.0106)		ATGGGCTGGGCGCAAGCTTCC	0.547													10	21					0	0	0.002450	0	0	
CCNB1IP1	57820	broad.mit.edu	37	14	20784573	20784573	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:20784573C>T	uc001vwv.2	-	5	759	c.110G>A	c.(109-111)GGC>GAC	p.G37D	CCNB1IP1_uc001vww.2_Missense_Mutation_p.G37D|CCNB1IP1_uc001vwx.2_Missense_Mutation_p.G37D|CCNB1IP1_uc001vwy.2_Missense_Mutation_p.G37D|CCNB1IP1_uc001vwz.2_Missense_Mutation_p.G37D|CCNB1IP1_uc010ahh.1_RNA	NM_182851	NP_878271	Q9NPC3	CIP1_HUMAN	cyclin B1 interacting protein 1 isoform 3	37	RING-type; atypical.					chromosome|nucleus	ligase activity|metal ion binding|protein binding		HMGA2/CCNB1IP1(2)	soft_tissue(2)|ovary(1)	3	all_cancers(95;0.00092)	all_lung(585;0.235)	Epithelial(56;8.86e-07)|all cancers(55;4.98e-06)	GBM - Glioblastoma multiforme(265;0.0164)		CTCACCACTGCCATGCTGATC	0.483			T	HMGA2	leiomyoma								7	45					0	0	0.003080	0	0	
TEP1	7011	broad.mit.edu	37	14	20836631	20836631	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:20836631C>T	uc001vxe.2	-	55	7889	c.7849G>A	c.(7849-7851)GTG>ATG	p.V2617M	TEP1_uc010ahj.1_RNA|TEP1_uc010ahk.2_3'UTR|TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Missense_Mutation_p.V2509M	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	2617	WD 21.				telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		TTGCCCTGCACGTCTCCCACG	0.547													21	44					0	0	0.002299	0	0	
TEP1	7011	broad.mit.edu	37	14	20853143	20853143	+	Splice_Site	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:20853143C>T	uc001vxe.2	-	21	3147	c.3107_splice	c.e21+1	p.S1036_splice	TEP1_uc010ahk.2_Splice_Site_p.S386_splice|TEP1_uc010tlf.1_Splice_Site|TEP1_uc010tlg.1_Splice_Site_p.S928_splice|TEP1_uc010tlh.1_5'Flank	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1						telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		ACAGACAGTACCTGAGGAAGC	0.552													7	22					0	0	0.003080	0	0	
RNASE4	6038	broad.mit.edu	37	14	21167643	21167643	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:21167643G>A	uc001vxy.3	+	2	676	c.113G>A	c.(112-114)CGG>CAG	p.R38Q	RNASE4_uc001vxx.3_RNA|RNASE4_uc001vya.2_Missense_Mutation_p.R38Q	NM_002937	NP_002928	P34096	RNAS4_HUMAN	ribonuclease, RNase A family, 4 precursor	38		Substrate.			mRNA cleavage	extracellular region	nucleic acid binding|pancreatic ribonuclease activity			central_nervous_system(1)	1	all_cancers(95;0.00304)		Epithelial(56;5.13e-07)|all cancers(55;4.73e-06)	GBM - Glioblastoma multiforme(265;0.0133)		CGATTCCTGCGGCAACACGTG	0.557													5	61					0	0	0.000602	0	0	
HNRNPC	3183	broad.mit.edu	37	14	21702318	21702318	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:21702318C>T	uc001vzy.2	-	3	279	c.35G>A	c.(34-36)CGC>CAC	p.R12H	HNRNPC_uc001vzw.2_Missense_Mutation_p.R12H|HNRNPC_uc001wad.2_Missense_Mutation_p.R12H|HNRNPC_uc001vzx.2_RNA|HNRNPC_uc001vzz.2_Missense_Mutation_p.R12H|HNRNPC_uc001waa.2_Missense_Mutation_p.R12H|HNRNPC_uc010ail.2_Missense_Mutation_p.R12H|HNRNPC_uc010tlq.1_RNA|HNRNPC_uc001wab.2_Missense_Mutation_p.R12H|HNRNPC_uc001wac.2_Missense_Mutation_p.R12H|HNRNPC_uc001waf.2_Missense_Mutation_p.R12H|HNRNPC_uc001wae.2_Missense_Mutation_p.R12H	NM_031314	NP_112604	P07910	HNRPC_HUMAN	heterogeneous nuclear ribonucleoprotein C	12						catalytic step 2 spliceosome|nucleoplasm	identical protein binding|nucleotide binding|RNA binding				0	all_cancers(95;0.00176)		Epithelial(56;1.08e-06)|all cancers(55;8.95e-06)	GBM - Glioblastoma multiforme(265;0.00783)		GTTCATGGAGCGAGGATCTGT	0.428													28	58					0	0	0.006320	0	0	
CHD8	57680	broad.mit.edu	37	14	21873401	21873401	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:21873401G>A	uc001was.1	-	16	2531	c.2437C>T	c.(2437-2439)CGC>TGC	p.R813C	CHD8_uc001war.1_Missense_Mutation_p.R709C|CHD8_uc001wav.1_Missense_Mutation_p.R255C	NM_020920	NP_065971	Q9HCK8	CHD8_HUMAN	chromodomain helicase DNA binding protein 8	1092					ATP-dependent chromatin remodeling|canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	MLL1 complex	ATP binding|beta-catenin binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity|methylated histone residue binding|p53 binding			ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)|skin(1)	10	all_cancers(95;0.00121)		Epithelial(56;2.55e-06)|all cancers(55;1.73e-05)	GBM - Glioblastoma multiforme(265;0.00424)		CAGCACTTGCGCAACTCCATC	0.433													10	21					0	0	0.001368	0	0	
OR10G3	26533	broad.mit.edu	37	14	22038134	22038134	+	Missense_Mutation	SNP	C	T	T	rs142649226	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:22038134C>T	uc010tmb.1	-	1	742	c.742G>A	c.(742-744)GTG>ATG	p.V248M		NM_001005465	NP_001005465	Q8NGC4	O10G3_HUMAN	olfactory receptor, family 10, subfamily G,	248	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|central_nervous_system(1)	2	all_cancers(95;0.000987)			GBM - Glioblastoma multiforme(265;0.0139)		ACGGTGACCACGGTTACATGG	0.577													28	68					0	0	0.006320	0	0	
HAUS4	54930	broad.mit.edu	37	14	23416833	23416833	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:23416833G>A	uc001whp.2	-	7	847	c.816C>T	c.(814-816)TGC>TGT	p.C272C	HAUS4_uc001who.2_RNA|HAUS4_uc001whq.2_Silent_p.C146C|HAUS4_uc001whr.2_Silent_p.C272C|HAUS4_uc001whs.2_Silent_p.C227C|HAUS4_uc001wht.2_Silent_p.C272C|HAUS4_uc001whu.2_Silent_p.C227C|HAUS4_uc001whv.2_Silent_p.C148C|HAUS4_uc001whw.2_Silent_p.C272C|HAUS4_uc001whx.2_Silent_p.C227C	NM_017815	NP_060285	Q9H6D7	HAUS4_HUMAN	HAUS augmin-like complex, subunit 4	272					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|spindle				ovary(1)	1						TCATAGCACCGCACTTGACTT	0.512													21	63					0	0	0.001882	0	0	
IL25	64806	broad.mit.edu	37	14	23845030	23845030	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:23845030C>T	uc001wjr.2	+	2	785	c.475C>T	c.(475-477)CGC>TGC	p.R159C	IL25_uc001wjq.2_Missense_Mutation_p.R143C|CMTM5_uc001wjs.2_5'Flank|CMTM5_uc001wjt.2_5'Flank|CMTM5_uc010akm.2_5'Flank|CMTM5_uc010akn.2_5'Flank|CMTM5_uc001wju.2_5'Flank|CMTM5_uc010ako.2_5'Flank	NM_022789	NP_073626	Q9H293	IL25_HUMAN	interleukin 25 isoform 1 precursor	159					inflammatory response	extracellular space|membrane	cytokine activity|interleukin-17E receptor binding			ovary(1)	1	all_cancers(95;2e-05)			GBM - Glioblastoma multiforme(265;0.00665)|READ - Rectum adenocarcinoma(4;0.0276)|Colorectal(4;0.0396)		CTGCCTGGAGCGCAGGCTGTA	0.627													11	33					0	0	0.008291	0	0	
MYH6	4624	broad.mit.edu	37	14	23862233	23862233	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:23862233G>A	uc001wjv.2	-	24	3206	c.3139C>T	c.(3139-3141)CGC>TGC	p.R1047C		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	1047	Potential.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		AGGTCCATGCGCACCTTCTTC	0.498													7	66					0	0	0.004482	0	0	
MYH7	4625	broad.mit.edu	37	14	23886441	23886441	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:23886441C>A	uc001wjx.2	-	32	4546	c.4440G>T	c.(4438-4440)GAG>GAT	p.E1480D		NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	1480	Potential.				adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		GTTTGAAGAGCTCTGTGCTGA	0.587													6	104					1.06961e-07	1.14085e-07	0.003080	1	0	
DHRS4L2	317749	broad.mit.edu	37	14	24470629	24470629	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:24470629C>T	uc001wli.3	+	6	698	c.568C>T	c.(568-570)CTG>TTG	p.L190L	DHRS4_uc001wlc.3_Intron|DHRS4L2_uc001wld.3_Intron|DHRS4L2_uc001wle.3_Intron|DHRS4L2_uc001wlg.3_Intron|DHRS4L2_uc001wlh.3_Intron|DHRS4L2_uc010tnt.1_Silent_p.L113L|DHRS4L2_uc010alb.2_Silent_p.L64L	NM_198083	NP_932349	D5KJA1	D5KJA1_HUMAN	dehydrogenase/reductase (SDR family) member 4	128							binding|oxidoreductase activity			ovary(1)	1				GBM - Glioblastoma multiforme(265;0.00962)		AACAGCCTTGCTGGGCCTCAA	0.473													49	122					0	0	0.003610	0	0	
PCK2	5106	broad.mit.edu	37	14	24572751	24572751	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:24572751C>T	uc001wlt.2	+	10	1633	c.1501C>T	c.(1501-1503)CGG>TGG	p.R501W	NRL_uc001wlq.2_Intron|PCK2_uc001wlr.1_Intron|PCK2_uc010tnw.1_Missense_Mutation_p.R367W|PCK2_uc010tnx.1_Missense_Mutation_p.R367W|PCK2_uc001wlu.3_Missense_Mutation_p.R335W	NM_004563	NP_004554	Q16822	PCKGM_HUMAN	mitochondrial phosphoenolpyruvate carboxykinase	501					gluconeogenesis	mitochondrial matrix	GTP binding|metal ion binding|phosphoenolpyruvate carboxykinase (GTP) activity			ovary(1)	1				GBM - Glioblastoma multiforme(265;0.0184)		ATTTGCCATGCGGCCCTTTTT	0.577													20	45					0	0	0.003954	0	0	
RNF31	55072	broad.mit.edu	37	14	24618731	24618731	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:24618731C>T	uc001wmn.1	+	6	997	c.748C>T	c.(748-750)CGT>TGT	p.R250C	PSME2_uc001wmj.2_5'Flank|PSME2_uc001wmk.2_5'Flank|RNF31_uc001wml.1_Missense_Mutation_p.R99C|RNF31_uc001wmm.1_Intron|RNF31_uc010alg.1_Missense_Mutation_p.R65C|RNF31_uc001wmo.1_5'Flank|RNF31_uc001wmp.2_5'Flank	NM_017999	NP_060469	Q96EP0	RNF31_HUMAN	ring finger protein 31	250	Polyubiquitin-binding.				CD40 signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein linear polyubiquitination|T cell receptor signaling pathway	CD40 receptor complex|internal side of plasma membrane|LUBAC complex	ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(265;0.00861)		ACACCCATCCCGTGCTCATCA	0.607													17	52					0	0	0.002299	0	0	
RNF31	55072	broad.mit.edu	37	14	24620776	24620776	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:24620776G>A	uc001wmn.1	+	10	2069	c.1820G>A	c.(1819-1821)CGG>CAG	p.R607Q	RNF31_uc001wml.1_Missense_Mutation_p.R456Q|RNF31_uc001wmm.1_Intron|RNF31_uc010alg.1_Missense_Mutation_p.R366Q|RNF31_uc001wmo.1_Missense_Mutation_p.R74Q|RNF31_uc001wmp.2_RNA	NM_017999	NP_060469	Q96EP0	RNF31_HUMAN	ring finger protein 31	607	Interaction with RBCK1.|UBA.				CD40 signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein linear polyubiquitination|T cell receptor signaling pathway	CD40 receptor complex|internal side of plasma membrane|LUBAC complex	ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(265;0.00861)		GATGTGTCACGGGCCCTGACT	0.642													10	24					0	0	0.006214	0	0	
REC8	9985	broad.mit.edu	37	14	24642219	24642219	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:24642219C>T	uc001wmr.2	+	4	664	c.237C>T	c.(235-237)CGC>CGT	p.R79R	REC8_uc001wms.2_Silent_p.R79R	NM_005132	NP_005123	O95072	REC8_HUMAN	REC8 homolog	79					mitotic metaphase/anaphase transition|mitotic prometaphase|reciprocal meiotic recombination|sister chromatid cohesion	nucleoplasm					0				GBM - Glioblastoma multiforme(265;0.00839)		GTGTGATCCGCGTCTATTCTC	0.602													22	62					0	0	0.003954	0	0	
IPO4	79711	broad.mit.edu	37	14	24654160	24654160	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:24654160C>T	uc001wmv.1	-	15	1566	c.1435G>A	c.(1435-1437)GAG>AAG	p.E479K	IPO4_uc001wmt.1_5'Flank|IPO4_uc001wmu.2_Missense_Mutation_p.E141K|IPO4_uc001wmx.1_Missense_Mutation_p.E343K|IPO4_uc001wmy.1_Missense_Mutation_p.E343K|IPO4_uc010tnz.1_RNA|IPO4_uc001wmw.1_RNA|IPO4_uc001wmz.1_Missense_Mutation_p.E479K	NM_024658	NP_078934	Q8TEX9	IPO4_HUMAN	importin 4	479	HEAT 4.				intracellular protein transport	cytoplasm|nucleus	protein binding|protein transporter activity			kidney(1)	1				GBM - Glioblastoma multiforme(265;0.0087)		TCCATAAGCTCCGGAAGGTAG	0.627													3	21					0	0	0.000602	0	0	
TM9SF1	10548	broad.mit.edu	37	14	24679618	24679618	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:24679618G>A	uc010tob.1	-	5	1258	c.624C>T	c.(622-624)GAC>GAT	p.D208D	CHMP4A_uc001wni.2_Silent_p.D225D|CHMP4A_uc010toc.1_RNA|CHMP4A_uc001wnj.2_Silent_p.D225D	NM_006405	NP_006396	O15321	TM9S1_HUMAN	transmembrane 9 superfamily member 1 isoform a	Error:Variant_position_missing_in_O15321_after_alignment					autophagy	autophagic vacuole membrane|cytoplasmic vesicle|integral to membrane|lysosomal membrane				ovary(1)	1				GBM - Glioblastoma multiforme(265;0.0183)		CTTCTTCCTTGTCGCCCACAT	0.507													8	197					0	0	0.004482	0	0	
ADCY4	196883	broad.mit.edu	37	14	24791279	24791279	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:24791279C>T	uc001wov.2	-	20	2585	c.2579G>A	c.(2578-2580)CGC>CAC	p.R860H	ADCY4_uc001wow.2_Missense_Mutation_p.R860H|ADCY4_uc010toh.1_Missense_Mutation_p.R546H|ADCY4_uc001wox.2_Missense_Mutation_p.R860H|ADCY4_uc001woy.2_Missense_Mutation_p.R860H	NM_139247	NP_640340	Q8NFM4	ADCY4_HUMAN	adenylate cyclase 4	860	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding|protein binding			ovary(1)|lung(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(265;0.0192)		CACCTCGTTGCGCCGGTTCTG	0.582													21	40					0	0	0.004656	0	0	
KHNYN	23351	broad.mit.edu	37	14	24900835	24900835	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:24900835G>A	uc001wph.3	+	3	570	c.368G>A	c.(367-369)GGC>GAC	p.G123D	KHNYN_uc010tpc.1_Missense_Mutation_p.G164D|KHNYN_uc010alw.2_Missense_Mutation_p.G123D|CBLN3_uc001wpg.3_5'Flank	NM_015299	NP_056114	O15037	KHNYN_HUMAN	hypothetical protein LOC23351	123										ovary(2)|liver(1)	3						ATGATCAGTGGCCTGACTGAA	0.617											OREG0022627	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	29					0	0	0.004482	0	0	
Unknown	0	broad.mit.edu	37	14	31290684	31290684	+	RNA	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:31290684C>T	uc001wqo.2	+	1		c.52C>T								full-length cDNA clone CS0DC024YB05 of Neuroblastoma Cot 25-normalized of Homo sapiens (human).																		TTTGTCCTGGCTGGATGCTAC	0.493													9	39					0	0	0.006214	0	0	
HECTD1	25831	broad.mit.edu	37	14	31604296	31604296	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:31604296A>G	uc001wrc.1	-	22	3849	c.3360T>C	c.(3358-3360)CGT>CGC	p.R1120R	HECTD1_uc001wrd.1_Silent_p.R635R	NM_015382	NP_056197	Q9ULT8	HECD1_HUMAN	HECT domain containing 1	1120					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	metal ion binding|protein binding|ubiquitin-protein ligase activity			ovary(3)|large_intestine(1)|lung(1)	5	Hepatocellular(127;0.0877)|Breast(36;0.176)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.111)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00617)		CTGAATTATCACGACTTAGTA	0.408													39	111					0	0	0.006999	0	0	
BAZ1A	11177	broad.mit.edu	37	14	35240741	35240741	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:35240741G>A	uc001wsk.2	-	21	3845	c.3277C>T	c.(3277-3279)CGG>TGG	p.R1093W	BAZ1A_uc001wsl.2_Missense_Mutation_p.R1061W	NM_013448	NP_038476	Q9NRL2	BAZ1A_HUMAN	bromodomain adjacent to zinc finger domain, 1A	1093					chromatin remodeling|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ACF complex	zinc ion binding			lung(2)|central_nervous_system(2)|ovary(1)|breast(1)|skin(1)	7	Breast(36;0.0388)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;7.23e-05)|Lung(238;0.00019)|Epithelial(34;0.0793)|all cancers(34;0.175)	GBM - Glioblastoma multiforme(112;0.0659)		AGAAAACGCCGCTCAATGCCC	0.368													20	220					0	0	0.002780	0	0	
KIAA0391	9692	broad.mit.edu	37	14	35739649	35739649	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:35739649C>T	uc001wsy.1	+	7	1827	c.1467C>T	c.(1465-1467)TCC>TCT	p.S489S	KIAA0391_uc010tps.1_Silent_p.S394S|KIAA0391_uc001wsz.1_Silent_p.S473S|KIAA0391_uc001wta.2_RNA|KIAA0391_uc001wtb.1_Silent_p.S473S|KIAA0391_uc001wtc.1_Silent_p.S117S	NM_014672	NP_055487	O15091	MRRP3_HUMAN	mitochondrial RNase P protein 3 precursor	489					tRNA processing	mitochondrion					0	Breast(36;0.0545)|Hepatocellular(127;0.158)|Prostate(35;0.184)		Lung(238;2.93e-05)|LUAD - Lung adenocarcinoma(48;3.86e-05)|Epithelial(34;0.0114)|all cancers(34;0.0277)	GBM - Glioblastoma multiforme(112;0.0593)		CACTGCACTCCGGGAATCACT	0.527													30	69					0	0	0.008361	0	0	
RALGAPA1	253959	broad.mit.edu	37	14	36133925	36133925	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:36133925G>A	uc001wti.2	-	26	4124	c.3733C>T	c.(3733-3735)CCC>TCC	p.P1245S	RALGAPA1_uc010amp.2_RNA|RALGAPA1_uc001wtj.2_Missense_Mutation_p.P1245S|RALGAPA1_uc010tpv.1_Missense_Mutation_p.P1258S|RALGAPA1_uc010tpw.1_Missense_Mutation_p.P1292S	NM_014990	NP_055805	Q6GYQ0	RGPA1_HUMAN	Ral GTPase activating protein, alpha subunit 1	1245					activation of Ral GTPase activity	cytosol|mitochondrion|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(3)|breast(1)	4						TATAAGTTGGGAAAGCAAACC	0.338													5	50					0	0	0.000602	0	0	
SSTR1	6751	broad.mit.edu	37	14	38678974	38678974	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:38678974C>T	uc001wul.1	+	3	997	c.380C>T	c.(379-381)GCG>GTG	p.A127V	SSTR1_uc010amu.1_Intron	NM_001049	NP_001040	P30872	SSR1_HUMAN	somatostatin receptor 1	127	Extracellular (Potential).				digestion|G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cell proliferation|response to nutrient	integral to plasma membrane	somatostatin receptor activity			central_nervous_system(3)|ovary(1)|lung(1)	5	Hepatocellular(127;0.213)|Esophageal squamous(585;0.22)		Lung(238;3.93e-06)|LUAD - Lung adenocarcinoma(48;2.62e-05)|Epithelial(34;0.187)	GBM - Glioblastoma multiforme(112;0.00444)	Octreotide(DB00104)	CCCTTCGGTGCGCTGCTCTGC	0.592													27	98					0	0	0.009535	0	0	
SSTR1	6751	broad.mit.edu	37	14	38679346	38679346	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:38679346G>A	uc001wul.1	+	3	1369	c.752G>A	c.(751-753)CGC>CAC	p.R251H	SSTR1_uc010amu.1_Intron	NM_001049	NP_001040	P30872	SSR1_HUMAN	somatostatin receptor 1	251	Cytoplasmic (Potential).				digestion|G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cell proliferation|response to nutrient	integral to plasma membrane	somatostatin receptor activity			central_nervous_system(3)|ovary(1)|lung(1)	5	Hepatocellular(127;0.213)|Esophageal squamous(585;0.22)		Lung(238;3.93e-06)|LUAD - Lung adenocarcinoma(48;2.62e-05)|Epithelial(34;0.187)	GBM - Glioblastoma multiforme(112;0.00444)	Octreotide(DB00104)	GCTAAGATGCGCATGGTGGCC	0.582													4	40					0	0	0.009096	0	0	
CLEC14A	161198	broad.mit.edu	37	14	38724733	38724733	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:38724733G>A	uc001wum.1	-	1	842	c.495C>T	c.(493-495)CGC>CGT	p.R165R		NM_175060	NP_778230	Q86T13	CLC14_HUMAN	C-type lectin domain family 14, member A	165	Extracellular (Potential).|C-type lectin.					integral to membrane	sugar binding			ovary(3)|skin(1)	4	Hepatocellular(127;0.213)|Esophageal squamous(585;0.22)		Lung(238;3.93e-06)|LUAD - Lung adenocarcinoma(48;2.62e-05)|Epithelial(34;0.187)	GBM - Glioblastoma multiforme(112;0.00439)		AGCCGTTGGCGCGCAGGTGGC	0.577													5	18					0	0	0.004482	0	0	
SIP1	8487	broad.mit.edu	37	14	39591696	39591696	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:39591696C>T	uc001wuq.2	+	5	490	c.468C>T	c.(466-468)GAC>GAT	p.D156D	SIP1_uc001wur.2_Silent_p.D156D|SIP1_uc001wus.2_Silent_p.D156D|SIP1_uc010amx.2_RNA	NM_003616	NP_003607	O14893	GEMI2_HUMAN	SMN-interacting protein 1 isoform alpha	156					ncRNA metabolic process|spliceosomal snRNP assembly|spliceosome assembly	Cajal body|cytosol|spliceosomal complex	protein binding				0	Hepatocellular(127;0.213)		Lung(238;0.00047)|LUAD - Lung adenocarcinoma(48;0.000565)	GBM - Glioblastoma multiforme(112;0.0121)		TATGTGCTGACGGGGCTGTTG	0.368													7	39					0	0	0.001984	0	0	
KLHL28	54813	broad.mit.edu	37	14	45400591	45400591	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:45400591G>A	uc001wvq.2	-	4	1743	c.1497C>T	c.(1495-1497)TAC>TAT	p.Y499Y	KLHL28_uc001wvr.2_Silent_p.Y499Y	NM_017658	NP_060128	Q9NXS3	KLH28_HUMAN	BTB (POZ) domain containing 5	499	Kelch 5.									ovary(1)	1						GATGAGGATCGTATCTTTCAA	0.378													18	45					0	0	0.006122	0	0	
FAM179B	23116	broad.mit.edu	37	14	45473399	45473399	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:45473399C>G	uc001wvv.2	+	4	2683	c.2474C>G	c.(2473-2475)ACT>AGT	p.T825S	FAM179B_uc001wvw.2_Missense_Mutation_p.T825S|FAM179B_uc010anc.2_RNA|FAM179B_uc001wvu.2_Missense_Mutation_p.T825S	NM_015091	NP_055906	Q9Y4F4	F179B_HUMAN	hypothetical protein LOC23116	825							binding			skin(2)|upper_aerodigestive_tract(1)	3						TCACCTCGAACTAGTCCAAAG	0.393													23	78					0	0	0.002299	0	0	
PRPF39	55015	broad.mit.edu	37	14	45579902	45579902	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:45579902C>T	uc001wvz.3	+	10	1624	c.1454C>T	c.(1453-1455)GCC>GTC	p.A485V	PRPF39_uc001wvy.3_Missense_Mutation_p.A364V|PRPF39_uc010and.2_Missense_Mutation_p.A275V|PRPF39_uc001wwa.1_Missense_Mutation_p.A89V|SNORD127_uc010ane.2_5'Flank	NM_017922	NP_060392	Q86UA1	PRP39_HUMAN	PRP39 pre-mRNA processing factor 39 homolog	485					mRNA processing|RNA splicing	nucleus	binding			ovary(1)|breast(1)	2						ATTAAGAATGCCAAATCAAAT	0.378													4	17					0	0	0.000602	0	0	
FANCM	57697	broad.mit.edu	37	14	45667954	45667954	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:45667954G>A	uc001wwd.3	+	22	5923	c.5824G>A	c.(5824-5826)GCA>ACA	p.A1942T	FANCM_uc010anf.2_Missense_Mutation_p.A1916T|FANCM_uc001wwe.3_Missense_Mutation_p.A1478T|FANCM_uc010ang.2_Missense_Mutation_p.A1191T	NM_020937	NP_065988	Q8IYD8	FANCM_HUMAN	Fanconi anemia, complementation group M	1942	Interaction with FAAP24 and EME1.				DNA repair	Fanconi anaemia nuclear complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|nuclease activity|protein binding			ovary(3)|lung(2)|breast(2)	7						AGAAGAAACCGCAGATTTGCT	0.408								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				15	63					0	0	0.006122	0	0	
NIN	51199	broad.mit.edu	37	14	51210171	51210171	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:51210171G>A	uc001wym.2	-	24	5455	c.5264C>T	c.(5263-5265)GCG>GTG	p.A1755V	NIN_uc001wyi.2_Missense_Mutation_p.A1755V|NIN_uc001wyj.2_RNA|NIN_uc001wyk.2_Missense_Mutation_p.A1042V|NIN_uc010tqp.1_Missense_Mutation_p.A1761V|NIN_uc001wyo.2_Missense_Mutation_p.A1755V	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	1755	Potential.				centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					CTTTAAGCTCGCACTCTGATG	0.423			T	PDGFRB	MPD								29	30					0	0	0.009535	0	0	
NIN	51199	broad.mit.edu	37	14	51259463	51259463	+	Silent	SNP	C	T	T	rs146441468		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:51259463C>T	uc001wym.2	-	5	593	c.402G>A	c.(400-402)CGG>CGA	p.R134R	NIN_uc001wyi.2_Silent_p.R134R|NIN_uc001wyj.2_RNA|NIN_uc001wyk.2_Silent_p.R134R|NIN_uc010tqp.1_Silent_p.R140R|NIN_uc001wyo.2_Silent_p.R134R|NIN_uc001wyp.1_Silent_p.R96R	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	134					centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					TGTGTGAAGGCCGCGCTTCTT	0.572			T	PDGFRB	MPD								5	34					0	0	0.001984	0	0	
TRIM9	114088	broad.mit.edu	37	14	51448575	51448575	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:51448575G>A	uc001wyx.3	-	8	2615	c.1850C>T	c.(1849-1851)GCA>GTA	p.A617V	TRIM9_uc001wyy.2_Missense_Mutation_p.A698V	NM_015163	NP_055978	Q9C026	TRIM9_HUMAN	tripartite motif protein 9 isoform 1	617	B30.2/SPRY.				proteasomal ubiquitin-dependent protein catabolic process	cell junction|cytoskeleton|dendrite|synaptic vesicle	protein homodimerization activity|ubiquitin-protein ligase activity|zinc ion binding			skin(2)|lung(1)	3	all_epithelial(31;0.00418)|Breast(41;0.148)					CACATACATTGCCCAAGCTTT	0.517													10	121					0	0	0.000978	0	0	
TRIM9	114088	broad.mit.edu	37	14	51560869	51560869	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:51560869G>A	uc001wyx.3	-	1	1554	c.789C>T	c.(787-789)GTC>GTT	p.V263V	TRIM9_uc001wyy.2_Silent_p.V263V|TRIM9_uc001wyz.3_Silent_p.V263V	NM_015163	NP_055978	Q9C026	TRIM9_HUMAN	tripartite motif protein 9 isoform 1	263	B box-type 2.				proteasomal ubiquitin-dependent protein catabolic process	cell junction|cytoskeleton|dendrite|synaptic vesicle	protein homodimerization activity|ubiquitin-protein ligase activity|zinc ion binding			skin(2)|lung(1)	3	all_epithelial(31;0.00418)|Breast(41;0.148)					CCAGAGCCTTGACTTCGTGGC	0.552													14	56					0	0	0.006122	0	0	
TRIM9	114088	broad.mit.edu	37	14	51561103	51561103	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:51561103G>A	uc001wyx.3	-	1	1320	c.555C>T	c.(553-555)TGC>TGT	p.C185C	TRIM9_uc001wyy.2_Silent_p.C185C|TRIM9_uc001wyz.3_Silent_p.C185C	NM_015163	NP_055978	Q9C026	TRIM9_HUMAN	tripartite motif protein 9 isoform 1	185	B box-type 1.				proteasomal ubiquitin-dependent protein catabolic process	cell junction|cytoskeleton|dendrite|synaptic vesicle	protein homodimerization activity|ubiquitin-protein ligase activity|zinc ion binding			skin(2)|lung(1)	3	all_epithelial(31;0.00418)|Breast(41;0.148)					AGAAGACATCGCACTGTTCGC	0.677													4	9					0	0	0.000602	0	0	
FRMD6	122786	broad.mit.edu	37	14	52169261	52169261	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:52169261T>A	uc001wzd.2	+	5	611	c.326T>A	c.(325-327)ATC>AAC	p.I109N	FRMD6_uc001wzb.2_Missense_Mutation_p.I101N|FRMD6_uc001wzc.2_Missense_Mutation_p.I101N|FRMD6_uc001wze.2_Missense_Mutation_p.I32N	NM_152330	NP_689543	Q96NE9	FRMD6_HUMAN	FERM domain containing 6	109	FERM.					cytoskeleton|mitochondrion|plasma membrane	binding			ovary(1)|breast(1)|central_nervous_system(1)	3	all_epithelial(31;0.0163)|Breast(41;0.089)					CCTATGATCATCCACTTCCGT	0.353													27	124					0	0	0.003271	0	0	
NID2	22795	broad.mit.edu	37	14	52477679	52477679	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:52477679C>T	uc001wzo.2	-	18	3871	c.3637G>A	c.(3637-3639)GCC>ACC	p.A1213T	NID2_uc010tqs.1_Missense_Mutation_p.A1165T|NID2_uc010tqt.1_Missense_Mutation_p.A1213T	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	1213	LDL-receptor class B 2.					basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)					TCCAGCAGGGCGCTCTCTATC	0.542													21	68					0	0	0.003330	0	0	
TXNDC16	57544	broad.mit.edu	37	14	52981604	52981604	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:52981604C>T	uc001wzs.2	-	8	1048	c.599G>A	c.(598-600)AGT>AAT	p.S200N	TXNDC16_uc010tqu.1_Missense_Mutation_p.S195N|TXNDC16_uc010aoe.2_RNA	NM_020784	NP_065835	Q9P2K2	TXD16_HUMAN	thioredoxin domain containing 16 isoform 1	200					cell redox homeostasis	extracellular region					0	Breast(41;0.0716)					ATACCCAATACTTTCCAAAAG	0.358													42	137					0	0	0.003610	0	0	
DDHD1	80821	broad.mit.edu	37	14	53525293	53525293	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:53525293G>A	uc001xai.2	-	9	2124	c.1894C>T	c.(1894-1896)CGT>TGT	p.R632C	DDHD1_uc001xaj.2_Missense_Mutation_p.R639C|DDHD1_uc001xah.2_Missense_Mutation_p.R632C|DDHD1_uc001xag.2_Missense_Mutation_p.R214C|DDHD1_uc001xak.1_Missense_Mutation_p.R28C	NM_001160148	NP_001153620	Q8NEL9	DDHD1_HUMAN	DDHD domain containing 1 isoform c	632	DDHD.				lipid catabolic process	cytoplasm	hydrolase activity|metal ion binding			ovary(2)	2	Breast(41;0.037)					CGGATGCCACGCAACGCCAAG	0.383													22	55					0	0	0.002299	0	0	
SAMD4A	23034	broad.mit.edu	37	14	55251329	55251329	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:55251329G>A	uc001xbb.2	+	11	2117	c.2116G>A	c.(2116-2118)GCC>ACC	p.A706T	SAMD4A_uc001xbc.2_Missense_Mutation_p.A618T|SAMD4A_uc001xbg.2_Missense_Mutation_p.A334T	NM_015589	NP_056404	Q9UPU9	SMAG1_HUMAN	sterile alpha motif domain containing 4 isoform	707					positive regulation of translation	cell junction|cytoplasm|dendrite|synapse|synaptosome	translation repressor activity				0						GACCGAACACGCCCTGGGAGG	0.557													8	100					0	0	0.003080	0	0	
KIAA0831	22863	broad.mit.edu	37	14	55836529	55836529	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:55836529G>A	uc001xbx.1	-	10	1323	c.1287C>T	c.(1285-1287)ACC>ACT	p.T429T	FBXO34_uc001xbv.2_Intron|KIAA0831_uc001xbw.1_Silent_p.T316T	NM_014924	NP_055739	Q6ZNE5	BAKOR_HUMAN	Barkor	429					autophagic vacuole assembly|positive regulation of autophagy	autophagic vacuole|endoplasmic reticulum|pre-autophagosomal structure membrane	protein binding				0						TGCCCAGGTCGGTTTCTTCAT	0.557													27	36					0	0	0.004656	0	0	
KIAA0831	22863	broad.mit.edu	37	14	55836547	55836547	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:55836547G>A	uc001xbx.1	-	10	1305	c.1269C>T	c.(1267-1269)CGC>CGT	p.R423R	FBXO34_uc001xbv.2_Intron|KIAA0831_uc001xbw.1_Silent_p.R310R	NM_014924	NP_055739	Q6ZNE5	BAKOR_HUMAN	Barkor	423					autophagic vacuole assembly|positive regulation of autophagy	autophagic vacuole|endoplasmic reticulum|pre-autophagosomal structure membrane	protein binding				0						CATCGCTGACGCGCTCATCTC	0.547													24	51					0	0	0.003330	0	0	
TBPL2	387332	broad.mit.edu	37	14	55903506	55903506	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:55903506G>A	uc001xby.2	-	2	381	c.381C>T	c.(379-381)AGC>AGT	p.S127S		NM_199047	NP_950248	Q6SJ96	TBPL2_HUMAN	TATA box binding protein like 2	127					multicellular organismal development|transcription initiation from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding				0						GTGGACTTTGGCTTTCAGAAT	0.463													23	53					0	0	0.005443	0	0	
C14orf101	54916	broad.mit.edu	37	14	57085368	57085368	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:57085368T>C	uc001xcm.2	+	10	1235	c.1113T>C	c.(1111-1113)GGT>GGC	p.G371G	C14orf101_uc001xcj.2_RNA|C14orf101_uc001xcl.1_RNA|C14orf101_uc001xcn.2_RNA|C14orf101_uc010trf.1_5'UTR|C14orf101_uc001xco.2_5'UTR	NM_017799	NP_060269	Q9NX78	CN101_HUMAN	hypothetical protein LOC54916	371	Helical; (Potential).					integral to membrane				breast(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(311;0.226)		CTGGCATTGGTTTGGCTGCAG	0.468													14	40					0	0	0.003163	0	0	
KIAA0586	9786	broad.mit.edu	37	14	58934588	58934588	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:58934588C>T	uc001xdv.3	+	15	2435	c.2162C>T	c.(2161-2163)GCC>GTC	p.A721V	KIAA0586_uc010trr.1_Missense_Mutation_p.A838V|KIAA0586_uc001xdt.3_Missense_Mutation_p.A753V|KIAA0586_uc001xdu.3_Missense_Mutation_p.A782V|KIAA0586_uc010trs.1_Missense_Mutation_p.A712V|KIAA0586_uc010trt.1_Missense_Mutation_p.A657V|KIAA0586_uc010tru.1_Missense_Mutation_p.A657V	NM_014749	NP_055564	E9PGW8	E9PGW8_HUMAN	talpid3 protein	721										ovary(1)	1						CCTAACATAGCCATTGTAGAA	0.398													18	98					0	0	0.001882	0	0	
PPM1A	5494	broad.mit.edu	37	14	60749747	60749747	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:60749747A>G	uc010apn.2	+	3	728	c.326A>G	c.(325-327)GAT>GGT	p.D109G	PPM1A_uc001xew.3_Missense_Mutation_p.D182G|PPM1A_uc001xex.3_Missense_Mutation_p.D109G|PPM1A_uc001xey.3_Missense_Mutation_p.D109G	NM_021003	NP_066283	P35813	PPM1A_HUMAN	protein phosphatase 1A isoform 1	109					cell cycle arrest|insulin receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway|protein dephosphorylation|Wnt receptor signaling pathway	cytosol|nucleus|protein serine/threonine phosphatase complex	magnesium ion binding|manganese ion binding|protein serine/threonine phosphatase activity|signal transducer activity			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.046)		CTGGAGATTGATGAACACATG	0.393													34	92					0	0	0.002836	0	0	
PPM1A	5494	broad.mit.edu	37	14	60756574	60756574	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:60756574C>T	uc010apn.2	+	5	1405	c.1003C>T	c.(1003-1005)CGC>TGC	p.R335C	PPM1A_uc001xew.3_Missense_Mutation_p.R408C|PPM1A_uc001xey.3_Missense_Mutation_p.R335C	NM_021003	NP_066283	P35813	PPM1A_HUMAN	protein phosphatase 1A isoform 1	335					cell cycle arrest|insulin receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway|protein dephosphorylation|Wnt receptor signaling pathway	cytosol|nucleus|protein serine/threonine phosphatase complex	magnesium ion binding|manganese ion binding|protein serine/threonine phosphatase activity|signal transducer activity			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.046)		CCATGTGATGCGCACATTAGC	0.433													11	48					0	0	0.001368	0	0	
PRKCH	5583	broad.mit.edu	37	14	61997194	61997194	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:61997194C>T	uc001xfn.2	+	12	1947	c.1642C>T	c.(1642-1644)CTC>TTC	p.L548F	PRKCH_uc010tsa.1_Missense_Mutation_p.L387F|PRKCH_uc010tsb.1_Missense_Mutation_p.L116F	NM_006255	NP_006246	P24723	KPCL_HUMAN	protein kinase C, eta	548	Protein kinase.				intracellular signal transduction|platelet activation	cytosol|plasma membrane	ATP binding|enzyme binding|metal ion binding|protein kinase C activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|lung(1)|large_intestine(1)|skin(1)	6				OV - Ovarian serous cystadenocarcinoma(108;0.045)|BRCA - Breast invasive adenocarcinoma(234;0.0906)|KIRC - Kidney renal clear cell carcinoma(182;0.182)		CTATGAGATGCTCTGTGGTCA	0.547													17	158					0	0	0.006122	0	0	
PPP2R5E	5529	broad.mit.edu	37	14	63856359	63856359	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:63856359C>T	uc001xgd.1	-	11	1635	c.1045G>A	c.(1045-1047)GCC>ACC	p.A349T	PPP2R5E_uc010tsf.1_Missense_Mutation_p.A273T|PPP2R5E_uc010tsg.1_Missense_Mutation_p.A273T|PPP2R5E_uc001xge.2_Missense_Mutation_p.A349T|PPP2R5E_uc010tsh.1_Missense_Mutation_p.A349T|PPP2R5E_uc001xgf.1_RNA	NM_006246	NP_006237	Q16537	2A5E_HUMAN	epsilon isoform of regulatory subunit B56,	349					signal transduction	cytoplasm|intracellular membrane-bounded organelle|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.00197)|all cancers(60;0.0153)|BRCA - Breast invasive adenocarcinoma(234;0.128)		ACACACTTGGCGATTTGTTTA	0.368													8	57					0	0	0.004482	0	0	
SYNE2	23224	broad.mit.edu	37	14	64447796	64447796	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:64447796C>G	uc001xgm.2	+	16	1971	c.1741C>G	c.(1741-1743)CTA>GTA	p.L581V	SYNE2_uc001xgl.2_Missense_Mutation_p.L581V	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	581	Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		GAAGTCCACTCTACAAAAAGT	0.338													4	237					0	0	0.000602	0	0	
SYNE2	23224	broad.mit.edu	37	14	64519034	64519034	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:64519034C>T	uc001xgm.2	+	48	8633	c.8403C>T	c.(8401-8403)GGC>GGT	p.G2801G	SYNE2_uc001xgl.2_Silent_p.G2801G	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	2801	Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		CCTATGAGGGCAGTGATTTAA	0.403													24	75					0	0	0.005443	0	0	
SYNE2	23224	broad.mit.edu	37	14	64542723	64542723	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:64542723C>T	uc001xgm.2	+	54	11157	c.10927C>T	c.(10927-10929)CGA>TGA	p.R3643*	SYNE2_uc001xgl.2_Nonsense_Mutation_p.R3643*|SYNE2_uc010apy.2_Nonsense_Mutation_p.R5*|SYNE2_uc010apw.1_Nonsense_Mutation_p.R349*|SYNE2_uc010apx.1_Nonsense_Mutation_p.R35*	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	3643	Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		GGAAAAACTGCGAATCAAGTA	0.388													20	40					0	0	0.002299	0	0	
SYNE2	23224	broad.mit.edu	37	14	64676162	64676162	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:64676162C>T	uc001xgm.2	+	102	18636	c.18406C>T	c.(18406-18408)CGC>TGC	p.R6136C	SYNE2_uc001xgl.2_Missense_Mutation_p.R6136C|SYNE2_uc010apy.2_Missense_Mutation_p.R2521C|SYNE2_uc001xgn.2_Missense_Mutation_p.R1098C|SYNE2_uc001xgo.2_RNA|SYNE2_uc010aqa.2_Missense_Mutation_p.R106C|SYNE2_uc001xgq.2_Missense_Mutation_p.R501C|SYNE2_uc001xgr.2_5'UTR	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	6136	Spectrin 7.|Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		GGAGACGTGGCGCCTGTGGCA	0.527													10	29					0	0	0.000978	0	0	
SYNE2	23224	broad.mit.edu	37	14	64678805	64678805	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:64678805C>T	uc001xgm.2	+	104	19080	c.18850C>T	c.(18850-18852)CGC>TGC	p.R6284C	SYNE2_uc001xgl.2_Missense_Mutation_p.R6284C|SYNE2_uc010apy.2_Missense_Mutation_p.R2669C|SYNE2_uc001xgn.2_Missense_Mutation_p.R1246C|SYNE2_uc001xgo.2_RNA|SYNE2_uc010aqa.2_Missense_Mutation_p.R254C|SYNE2_uc001xgq.2_Missense_Mutation_p.R649C|SYNE2_uc001xgr.2_Missense_Mutation_p.R67C|SYNE2_uc010tsi.1_5'Flank|SYNE2_uc001xgs.2_5'Flank	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	6284	Spectrin 8.|Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		TGACAAGATGCGCCAACTGAA	0.542													34	99					0	0	0.005524	0	0	
HSPA2	3306	broad.mit.edu	37	14	65008477	65008477	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:65008477C>T	uc001xhj.2	+	2	986	c.910C>T	c.(910-912)CGC>TGC	p.R304C	HSPA2_uc001xhk.3_Missense_Mutation_p.R304C	NM_021979	NP_068814	P54652	HSP72_HUMAN	heat shock 70kDa protein 2	304					response to unfolded protein|spermatid development	cell surface	ATP binding|unfolded protein binding			skin(1)	1				all cancers(60;0.00515)|OV - Ovarian serous cystadenocarcinoma(108;0.00584)|BRCA - Breast invasive adenocarcinoma(234;0.045)		CACGCGCGCCCGCTTCGAGGA	0.657													12	11					0	0	0.001855	0	0	
Unknown	0	broad.mit.edu	37	14	66479648	66479648	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:66479648C>T	uc001xit.2	-	1	985	c.860G>A	c.(859-861)CGC>CAC	p.R287H						SubName: Full=Nuclease sensitive element binding protein-1;																		GTTTTCTGGGCGTCGGCGTCG	0.542													7	73					0	0	0.004482	0	0	
Unknown	0	broad.mit.edu	37	14	66479675	66479675	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:66479675C>T	uc001xit.2	-	1	958	c.833G>A	c.(832-834)CGC>CAC	p.R278H						SubName: Full=Nuclease sensitive element binding protein-1;																		GAAGTTGCGGCGGTACCGACG	0.517													15	43					0	0	0.006122	0	0	
GPHN	10243	broad.mit.edu	37	14	67389441	67389441	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:67389441C>T	uc001xiy.2	+	7	1636	c.515C>T	c.(514-516)GCC>GTC	p.A172V	GPHN_uc001xiw.2_Missense_Mutation_p.A154V|GPHN_uc001xix.2_Missense_Mutation_p.A172V|GPHN_uc010tss.1_Missense_Mutation_p.A185V|GPHN_uc010tst.1_Missense_Mutation_p.A141V|GPHN_uc010tsu.1_Missense_Mutation_p.A62V	NM_001024218	NP_001019389	Q9NQX3	GEPH_HUMAN	gephyrin isoform 2	172	Interaction with GABARAP (By similarity).				Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cell junction|cytoplasm|cytoskeleton|postsynaptic membrane	ATP binding|metal ion binding|nucleotidyltransferase activity			ovary(2)	2		all_cancers(7;0.0476)|all_hematologic(31;0.0116)		Epithelial(1;1.73e-08)|all cancers(60;3.15e-07)|OV - Ovarian serous cystadenocarcinoma(108;0.000275)|BRCA - Breast invasive adenocarcinoma(234;0.00323)|Colorectal(3;0.0938)|KIRC - Kidney renal clear cell carcinoma(182;0.184)		TTACGTGATGCCATTGTAAAA	0.433			T	MLL	AL								31	143					0	0	0.004289	0	0	
FAM71D	161142	broad.mit.edu	37	14	67671596	67671596	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:67671596C>T	uc001xja.1	+	5	956	c.702C>T	c.(700-702)TTC>TTT	p.F234F	FAM71D_uc010aqn.1_RNA	NM_173526	NP_775797	Q8N9W8	FA71D_HUMAN	hypothetical protein LOC161142	234										ovary(1)	1		all_hematologic(31;0.0116)		all cancers(60;0.00107)|BRCA - Breast invasive adenocarcinoma(234;0.00993)|OV - Ovarian serous cystadenocarcinoma(108;0.012)		GCATAGATTTCCCAGAATTCA	0.463													6	78					0	0	0.001168	0	0	
VTI1B	10490	broad.mit.edu	37	14	68123210	68123210	+	Nonsense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:68123210C>A	uc001xjt.2	-	4	859	c.463G>T	c.(463-465)GAG>TAG	p.E155*	VTI1B_uc010aqp.2_Nonsense_Mutation_p.E94*|VTI1B_uc001xju.2_Nonsense_Mutation_p.E114*	NM_006370	NP_006361	Q9UEU0	VTI1B_HUMAN	vesicle transport through interaction with	155	Cytoplasmic (Potential).				cell proliferation|cellular membrane fusion|intracellular protein transport|vesicle docking involved in exocytosis	endomembrane system|integral to membrane					0				all cancers(60;0.000344)|OV - Ovarian serous cystadenocarcinoma(108;0.00212)|BRCA - Breast invasive adenocarcinoma(234;0.00941)		TGGTCAGTCTCTGTGGCAATC	0.502													5	119					0.000602214	0.000627828	0.000602	1	0	
DCAF5	8816	broad.mit.edu	37	14	69521638	69521638	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:69521638G>A	uc001xkp.2	-	9	1984	c.1765C>T	c.(1765-1767)CGC>TGC	p.R589C	DCAF5_uc001xkq.2_Missense_Mutation_p.R588C	NM_003861	NP_003852	Q96JK2	DCAF5_HUMAN	WD repeat domain 22	589						CUL4 RING ubiquitin ligase complex				ovary(1)|central_nervous_system(1)	2						TTCTGTCGGCGCCGCATGGCA	0.542													25	54					0	0	0.005443	0	0	
GALNTL1	57452	broad.mit.edu	37	14	69791495	69791495	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:69791495G>A	uc010aqu.1	+	3	515	c.422G>A	c.(421-423)CGC>CAC	p.R141H	GALNTL1_uc001xla.1_Missense_Mutation_p.R141H|GALNTL1_uc001xlb.1_Missense_Mutation_p.R141H	NM_020692	NP_065743	Q8N428	GLTL1_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	141	Catalytic subdomain A.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(1)|central_nervous_system(1)	2				all cancers(60;0.00793)|BRCA - Breast invasive adenocarcinoma(234;0.0174)|OV - Ovarian serous cystadenocarcinoma(108;0.0656)		ACCCTGCTGCGCACAGTGAAG	0.602													12	24					0	0	0.003163	0	0	
GALNTL1	57452	broad.mit.edu	37	14	69795264	69795264	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:69795264G>A	uc010aqu.1	+	6	759	c.666G>A	c.(664-666)CCG>CCA	p.P222P	GALNTL1_uc001xla.1_Silent_p.P222P|GALNTL1_uc001xlb.1_Silent_p.P222P	NM_020692	NP_065743	Q8N428	GLTL1_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	222	Catalytic subdomain A.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(1)|central_nervous_system(1)	2				all cancers(60;0.00793)|BRCA - Breast invasive adenocarcinoma(234;0.0174)|OV - Ovarian serous cystadenocarcinoma(108;0.0656)		AGTGGCTGCCGCCCATGCTGC	0.642													5	14					0	0	0.001984	0	0	
SLC39A9	55334	broad.mit.edu	37	14	69908873	69908873	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:69908873G>A	uc001xle.2	+	3	973	c.293G>A	c.(292-294)AGC>AAC	p.S98N	SLC39A9_uc010aqx.2_Missense_Mutation_p.S98N|SLC39A9_uc001xlf.3_Missense_Mutation_p.S98N|SLC39A9_uc001xlg.3_RNA	NM_018375	NP_060845	Q9NUM3	S39A9_HUMAN	solute carrier family 39 (zinc transporter),	98					zinc ion transport	integral to membrane	metal ion transmembrane transporter activity				0				all cancers(60;0.00299)|BRCA - Breast invasive adenocarcinoma(234;0.0145)|OV - Ovarian serous cystadenocarcinoma(108;0.0373)		CATGAGCACAGCCACGACCAC	0.458													6	103					0	0	0.001168	0	0	
SLC39A9	55334	broad.mit.edu	37	14	69925158	69925158	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:69925158G>A	uc001xle.2	+	7	1452	c.772G>A	c.(772-774)GCC>ACC	p.A258T	SLC39A9_uc010aqx.2_Missense_Mutation_p.A235T|SLC39A9_uc001xlf.3_Intron|SLC39A9_uc001xlg.3_RNA	NM_018375	NP_060845	Q9NUM3	S39A9_HUMAN	solute carrier family 39 (zinc transporter),	258	Helical; (Potential).				zinc ion transport	integral to membrane	metal ion transmembrane transporter activity				0				all cancers(60;0.00299)|BRCA - Breast invasive adenocarcinoma(234;0.0145)|OV - Ovarian serous cystadenocarcinoma(108;0.0373)		TCTTTATGTTGCCACAGTACA	0.567													6	82					0	0	0.003080	0	0	
KIAA0247	9766	broad.mit.edu	37	14	70171413	70171413	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:70171413C>A	uc001xlk.2	+	4	728	c.412C>A	c.(412-414)CTG>ATG	p.L138M	KIAA0247_uc010aqz.2_Missense_Mutation_p.L113M	NM_014734	NP_055549	Q92537	K0247_HUMAN	hypothetical protein LOC9766 precursor	138	Helical; (Potential).					integral to membrane				ovary(3)	3				all cancers(60;0.00155)|BRCA - Breast invasive adenocarcinoma(234;0.0164)|OV - Ovarian serous cystadenocarcinoma(108;0.0196)		CCTCGTGGTGCTGTTTGTGCT	0.527													12	27					2.27111e-07	2.4189e-07	0.001368	1	0	
SMOC1	64093	broad.mit.edu	37	14	70496965	70496965	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:70496965G>A	uc001xls.1	+	12	1548	c.1295G>A	c.(1294-1296)CGC>CAC	p.R432H	SMOC1_uc001xlt.1_Missense_Mutation_p.R433H	NM_022137	NP_071420	Q9H4F8	SMOC1_HUMAN	secreted modular calcium-binding protein 1	432					cell differentiation|eye development|limb development|regulation of osteoblast differentiation|signal transduction	basement membrane	calcium ion binding			upper_aerodigestive_tract(1)|pancreas(1)	2				all cancers(60;0.00417)|BRCA - Breast invasive adenocarcinoma(234;0.0119)|OV - Ovarian serous cystadenocarcinoma(108;0.028)		TCAGTAGGACGCCTCGTCTAA	0.507													6	55					0	0	0.001984	0	0	
SLC8A3	6547	broad.mit.edu	37	14	70634125	70634125	+	Missense_Mutation	SNP	C	T	T	rs138512128	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:70634125C>T	uc001xly.2	-	2	1769	c.1015G>A	c.(1015-1017)GCC>ACC	p.A339T	SLC8A3_uc001xlw.2_Missense_Mutation_p.A339T|SLC8A3_uc001xlx.2_Missense_Mutation_p.A339T|SLC8A3_uc001xlz.2_Missense_Mutation_p.A339T|SLC8A3_uc010ara.2_RNA	NM_183002	NP_892114	P57103	NAC3_HUMAN	solute carrier family 8 (sodium/calcium	339	Cytoplasmic (Potential).				cell communication|platelet activation	integral to membrane|plasma membrane	calcium:sodium antiporter activity|calmodulin binding			skin(3)|ovary(2)|breast(2)	7				BRCA - Breast invasive adenocarcinoma(234;0.0079)|all cancers(60;0.0102)|OV - Ovarian serous cystadenocarcinoma(108;0.0555)		TAGTAATTGGCCATCTCCACC	0.493													14	64					0	0	0.004990	0	0	
ADAM21P1	145241	broad.mit.edu	37	14	70712602	70712602	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:70712602A>G	uc010ttg.1	-	1	1917	c.1266T>C	c.(1264-1266)GGT>GGC	p.G422G		NR_003951				SubName: Full=ADAM21-like protein;												0						GATAGTCAATACCCCAGCAGG	0.433													7	60					0	0	0.003080	0	0	
ADAM21	8747	broad.mit.edu	37	14	70925992	70925992	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:70925992T>C	uc001xmd.2	+	1	1776	c.1776T>C	c.(1774-1776)GGT>GGC	p.G592G		NM_003813	NP_003804	Q9UKJ8	ADA21_HUMAN	ADAM metallopeptidase domain 21 preproprotein	592	Cys-rich.|Extracellular (Potential).				proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			pancreas(1)|skin(1)	2				all cancers(60;0.00326)|BRCA - Breast invasive adenocarcinoma(234;0.00646)|OV - Ovarian serous cystadenocarcinoma(108;0.0401)		CCTGCTGGGGTATTGACTATC	0.418													24	61					0	0	0.003954	0	0	
MAP3K9	4293	broad.mit.edu	37	14	71199485	71199485	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:71199485G>A	uc001xmm.2	-	11	2601	c.2601C>T	c.(2599-2601)GTC>GTT	p.V867V	MAP3K9_uc010ttk.1_Silent_p.V595V|MAP3K9_uc001xmk.2_Silent_p.V600V|MAP3K9_uc001xml.2_Silent_p.V881V	NM_033141	NP_149132	P80192	M3K9_HUMAN	mitogen-activated protein kinase kinase kinase	867	Pro-rich.				activation of JUN kinase activity|protein autophosphorylation		ATP binding|JUN kinase kinase kinase activity|MAP kinase kinase activity|protein homodimerization activity			stomach(2)|lung(1)|central_nervous_system(1)|skin(1)	5				all cancers(60;0.00779)|BRCA - Breast invasive adenocarcinoma(234;0.00884)|OV - Ovarian serous cystadenocarcinoma(108;0.08)		GAGGGGCCTCGACTGGGCTGA	0.577													18	20					0	0	0.004990	0	0	
SIPA1L1	26037	broad.mit.edu	37	14	72137841	72137841	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:72137841C>A	uc001xms.2	+	8	2609	c.2261C>A	c.(2260-2262)GCT>GAT	p.A754D	SIPA1L1_uc001xmt.2_Missense_Mutation_p.A754D|SIPA1L1_uc001xmu.2_Missense_Mutation_p.A754D|SIPA1L1_uc001xmv.2_Missense_Mutation_p.A754D|SIPA1L1_uc010ttm.1_Missense_Mutation_p.A229D	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	754	Rap-GAP.				actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		CTCAGTGTGGCTGTTACCAGG	0.438													21	259					1.66031e-10	1.78694e-10	0.003954	1	0	
SIPA1L1	26037	broad.mit.edu	37	14	72190523	72190523	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:72190523G>T	uc001xms.2	+	16	4779	c.4431G>T	c.(4429-4431)CAG>CAT	p.Q1477H	SIPA1L1_uc001xmt.2_Missense_Mutation_p.Q1456H|SIPA1L1_uc001xmu.2_Missense_Mutation_p.Q1456H|SIPA1L1_uc001xmv.2_Missense_Mutation_p.Q1477H|SIPA1L1_uc010ttm.1_Missense_Mutation_p.Q931H|SIPA1L1_uc001xmw.2_Missense_Mutation_p.Q242H	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	1477	Ser-rich.				actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		ACCCTCGCCAGGGCGCTACTA	0.423													23	144					1.64293e-13	1.78369e-13	0.003330	1	0	
SIPA1L1	26037	broad.mit.edu	37	14	72191399	72191399	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:72191399C>T	uc001xms.2	+	17	4872	c.4524C>T	c.(4522-4524)AGC>AGT	p.S1508S	SIPA1L1_uc001xmt.2_Silent_p.S1487S|SIPA1L1_uc001xmu.2_Silent_p.S1487S|SIPA1L1_uc001xmv.2_Silent_p.S1508S|SIPA1L1_uc010ttm.1_Silent_p.S962S|SIPA1L1_uc001xmw.2_Silent_p.S273S	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	1508					actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		GTCATCAGAGCGATGGCAATG	0.493													20	45					0	0	0.010504	0	0	
DPF3	8110	broad.mit.edu	37	14	73140989	73140989	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:73140989C>T	uc001xnc.2	-	8	843	c.830G>A	c.(829-831)CGG>CAG	p.R277Q	DPF3_uc001xnd.1_RNA|DPF3_uc001xnf.2_RNA|DPF3_uc010ari.1_Missense_Mutation_p.R277Q|DPF3_uc010ttq.1_Missense_Mutation_p.R287Q	NM_012074	NP_036206	Q92784	DPF3_HUMAN	D4, zinc and double PHD fingers, family 3	277	PHD-type 1.				chromatin modification|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nBAF complex	nucleic acid binding|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00649)|OV - Ovarian serous cystadenocarcinoma(108;0.0654)		CTCTTCAGGCCGCCCACTCTT	0.567													3	13					0	0	0.009096	0	0	
DPF3	8110	broad.mit.edu	37	14	73159844	73159844	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:73159844C>T	uc001xnc.2	-	7	695	c.682G>A	c.(682-684)GAT>AAT	p.D228N	DPF3_uc001xnd.1_RNA|DPF3_uc001xnf.2_RNA|DPF3_uc010ari.1_Missense_Mutation_p.D228N|DPF3_uc010ttq.1_Missense_Mutation_p.D238N	NM_012074	NP_036206	Q92784	DPF3_HUMAN	D4, zinc and double PHD fingers, family 3	228					chromatin modification|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nBAF complex	nucleic acid binding|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00649)|OV - Ovarian serous cystadenocarcinoma(108;0.0654)		TGAGCTTCATCCCCCTCCTCG	0.552													27	59					0	0	0.008361	0	0	
HEATR4	399671	broad.mit.edu	37	14	73989372	73989372	+	Missense_Mutation	SNP	C	T	T	rs142623987		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:73989372C>T	uc010tub.1	-	3	807	c.485G>A	c.(484-486)CGC>CAC	p.R162H	HEATR4_uc010tua.1_Missense_Mutation_p.R115H	NM_203309	NP_976054			HEAT repeat containing 4											ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00386)|OV - Ovarian serous cystadenocarcinoma(108;0.0719)		GATGAGAGGGCGGGGTGCTTC	0.557													13	28					0	0	0.002450	0	0	
C14orf43	91748	broad.mit.edu	37	14	74186094	74186094	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:74186094T>C	uc001xot.2	-	12	3831	c.3048A>G	c.(3046-3048)CTA>CTG	p.L1016L	C14orf43_uc001xos.2_Silent_p.L281L|C14orf43_uc001xou.2_Silent_p.L1016L|C14orf43_uc010tud.1_Silent_p.L1016L|C14orf43_uc010arw.2_RNA	NM_194278	NP_919254	Q6PJG2	CN043_HUMAN	hypothetical protein LOC91748	1016					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(4)|central_nervous_system(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00358)|KIRC - Kidney renal clear cell carcinoma(182;0.0878)|OV - Ovarian serous cystadenocarcinoma(108;0.115)		CTGAAAAAGGTAGTGCCCTTC	0.542													7	18					0	0	0.001984	0	0	
FAM161B	145483	broad.mit.edu	37	14	74407705	74407705	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:74407705C>T	uc001xpd.1	-	5	1430	c.1324G>A	c.(1324-1326)GGC>AGC	p.G442S		NM_152445	NP_689658			hypothetical protein LOC145483											ovary(1)	1						GAAGCAAGGCCGCTCAGAGAA	0.547													28	66					0	0	0.009535	0	0	
ABCD4	5826	broad.mit.edu	37	14	74763144	74763144	+	Missense_Mutation	SNP	C	T	T	rs150967109		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:74763144C>T	uc001xpr.2	-	5	586	c.434G>A	c.(433-435)CGC>CAC	p.R145H	ABCD4_uc001xps.2_5'UTR|ABCD4_uc001xpt.2_5'UTR|ABCD4_uc010tur.1_Missense_Mutation_p.R58H|ABCD4_uc001xpu.2_5'UTR|ABCD4_uc001xpv.2_RNA	NM_005050	NP_005041	O14678	ABCD4_HUMAN	ATP-binding cassette, sub-family D, member 4	145	ABC transmembrane type-1.					ATP-binding cassette (ABC) transporter complex|integral to membrane|peroxisomal membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			upper_aerodigestive_tract(2)|large_intestine(1)|ovary(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.00153)		CTGGCTGATGCGCTGGTCCCT	0.567													7	34					0	0	0.002450	0	0	
C14orf115	55237	broad.mit.edu	37	14	74824066	74824066	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:74824066C>T	uc001xpw.3	+	2	771	c.580C>T	c.(580-582)CGC>TGC	p.R194C		NM_018228	NP_060698	Q9H8Y1	VRTN_HUMAN	hypothetical protein LOC55237	194					transposition, DNA-mediated		DNA binding|transposase activity				0				BRCA - Breast invasive adenocarcinoma(234;0.00147)		CTACCCCATGCGCAACCTCAA	0.622													8	36					0	0	0.006214	0	0	
YLPM1	56252	broad.mit.edu	37	14	75265781	75265781	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:75265781C>T	uc001xqj.3	+	5	3905	c.3781C>T	c.(3781-3783)CGA>TGA	p.R1261*	YLPM1_uc001xql.3_RNA	NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1	1066	Arg-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck				ovary(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)		TGGAGATAGGCGAGGCCCTTG	0.488													12	36					0	0	0.002450	0	0	
MLH3	27030	broad.mit.edu	37	14	75516018	75516018	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:75516018T>G	uc001xrd.1	-	2	557	c.341A>C	c.(340-342)AAC>ACC	p.N114T	MLH3_uc001xre.1_Missense_Mutation_p.N114T|MLH3_uc010tuy.1_RNA	NM_001040108	NP_001035197	Q9UHC1	MLH3_HUMAN	mutL homolog 3 isoform 1	114					mismatch repair|reciprocal meiotic recombination	chiasma|MutLbeta complex|synaptonemal complex	ATP binding|ATPase activity|mismatched DNA binding|protein binding|satellite DNA binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00688)		CATTGTCCTGTTTTTCTTGGA	0.448								MMR					5	105					0	0	0.000602	0	0	
BATF	10538	broad.mit.edu	37	14	76012964	76012964	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:76012964G>A	uc001xrr.2	+	3	570	c.328G>A	c.(328-330)GCC>ACC	p.A110T		NM_006399	NP_006390	Q16520	BATF_HUMAN	basic leucine zipper transcription factor,	110						nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.028)		GGTGTACAGCGCCCACGCATT	0.662													3	6					0	0	0.004672	0	0	
TTLL5	23093	broad.mit.edu	37	14	76135826	76135826	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:76135826G>A	uc001xrx.2	+	3	347	c.142G>A	c.(142-144)GCT>ACT	p.A48T	TTLL5_uc001xrw.1_Missense_Mutation_p.A48T|TTLL5_uc010ask.1_Missense_Mutation_p.A48T|TTLL5_uc001xrv.2_Missense_Mutation_p.A48T	NM_015072	NP_055887	Q6EMB2	TTLL5_HUMAN	tubulin tyrosine ligase-like family, member 5	48					protein modification process|transcription, DNA-dependent	centrosome|cilium|microtubule basal body|nucleus	tubulin-tyrosine ligase activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.029)		CCATGCCGACGCTATTCTTAC	0.453													27	76					0	0	0.009535	0	0	
TGFB3	7043	broad.mit.edu	37	14	76431997	76431997	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:76431997G>A	uc001xsc.2	-	4	1544	c.688C>T	c.(688-690)CAC>TAC	p.H230Y	TGFB3_uc001xsd.2_Missense_Mutation_p.H228Y	NM_003239	NP_003230	P10600	TGFB3_HUMAN	transforming growth factor, beta 3 precursor	230					cell growth|cell-cell junction organization|detection of hypoxia|face morphogenesis|in utero embryonic development|induction of apoptosis|lung alveolus development|mammary gland development|menstrual cycle phase|negative regulation of cell proliferation|negative regulation of DNA replication|negative regulation of macrophage cytokine production|negative regulation of neuron apoptosis|odontogenesis|ossification involved in bone remodeling|palate development|platelet activation|platelet degranulation|positive regulation of bone mineralization|positive regulation of cell division|positive regulation of collagen biosynthetic process|positive regulation of DNA replication|positive regulation of epithelial to mesenchymal transition|positive regulation of filopodium assembly|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of protein secretion|positive regulation of SMAD protein import into nucleus|positive regulation of transcription from RNA polymerase II promoter|response to progesterone stimulus|salivary gland morphogenesis|transforming growth factor beta receptor signaling pathway	extracellular matrix|platelet alpha granule lumen	growth factor activity|identical protein binding|transforming growth factor beta binding|type I transforming growth factor beta receptor binding|type II transforming growth factor beta receptor binding			breast(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.0169)		TGAAAGGTGTGACATGGACAG	0.423													6	172					0	0	0.001984	0	0	
ANGEL1	23357	broad.mit.edu	37	14	77255579	77255579	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:77255579C>T	uc001xsv.2	-	10	2118	c.2005G>A	c.(2005-2007)GCC>ACC	p.A669T	uc001xsu.1_5'Flank|ANGEL1_uc010tvf.1_Intron	NM_015305	NP_056120	Q9UNK9	ANGE1_HUMAN	angel homolog 1	669										ovary(2)|central_nervous_system(1)|skin(1)	4			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0285)		TGTCATGGGGCGGTGACTTCC	0.537													10	131					0	0	0.000978	0	0	
POMT2	29954	broad.mit.edu	37	14	77745184	77745184	+	Silent	SNP	G	A	A	rs150755807		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:77745184G>A	uc001xti.2	-	19	2121	c.1920C>T	c.(1918-1920)GGC>GGT	p.G640G	POMT2_uc001xth.1_Silent_p.G338G	NM_013382	NP_037514	Q9UKY4	POMT2_HUMAN	protein-O-mannosyltransferase 2	640					protein O-linked glycosylation	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-mannose-protein mannosyltransferase activity|metal ion binding			ovary(1)	1			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0292)		GGACCTGGCCGCCTCCTCGAA	0.468													5	21					0	0	0.001168	0	0	
VIPAR	63894	broad.mit.edu	37	14	77910662	77910662	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:77910662C>T	uc001xtt.1	-	9	865	c.527G>A	c.(526-528)CGC>CAC	p.R176H	VIPAR_uc001xtu.1_Missense_Mutation_p.R176H|VIPAR_uc010tvj.1_Missense_Mutation_p.R127H|VIPAR_uc001xtv.1_Missense_Mutation_p.R176H	NM_022067	NP_071350	Q9H9C1	VIPAR_HUMAN	hypothetical protein LOC63894	176					endosome to lysosome transport|intracellular protein transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	early endosome|late endosome|recycling endosome	protein binding			central_nervous_system(1)	1						CTGTAAGGAGCGGAATCTCTC	0.393													5	47					0	0	0.003080	0	0	
ALKBH1	8846	broad.mit.edu	37	14	78146264	78146264	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:78146264G>A	uc001xuc.1	-	4	514	c.505C>T	c.(505-507)CGT>TGT	p.R169C	ALKBH1_uc001xud.1_RNA	NM_006020	NP_006011	Q13686	ALKB1_HUMAN	alkylated DNA repair protein alkB homolog	169					DNA dealkylation involved in DNA repair|DNA demethylation|oxidative demethylation|RNA repair	mitochondrion	DNA-(apurinic or apyrimidinic site) lyase activity|ferrous iron binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			ovary(1)|skin(1)	2			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0291)		GTCACCCAACGCAGTTTCTCC	0.398													8	71					0	0	0.004482	0	0	
ADCK1	57143	broad.mit.edu	37	14	78397931	78397931	+	Missense_Mutation	SNP	G	A	A	rs112630340		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:78397931G>A	uc001xui.2	+	10	1376	c.1277G>A	c.(1276-1278)CGC>CAC	p.R426H	ADCK1_uc001xuj.2_Missense_Mutation_p.R358H|ADCK1_uc001xul.2_Missense_Mutation_p.R133H	NM_020421	NP_065154	Q86TW2	ADCK1_HUMAN	aarF domain containing kinase 1 isoform a	433	Protein kinase.					extracellular region	ATP binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)	3			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0376)		CACGTGCCGCGCCAGATGCTG	0.592													11	24					0	0	0.002450	0	0	
C14orf145	145508	broad.mit.edu	37	14	81329141	81329141	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:81329141C>T	uc001xux.2	-	8	893	c.722G>A	c.(721-723)CGC>CAC	p.R241H	C14orf145_uc001xuz.2_Missense_Mutation_p.R241H|C14orf145_uc001xuy.1_Missense_Mutation_p.R99H	NM_152446	NP_689659	Q6ZU80	CE128_HUMAN	hypothetical protein LOC145508	241	Potential.					centriole|spindle pole					0				BRCA - Breast invasive adenocarcinoma(234;0.0586)		TTGATCCTGGCGTCTTTCCAC	0.463													23	82					0	0	0.003330	0	0	
TSHR	7253	broad.mit.edu	37	14	81422084	81422084	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:81422084C>T	uc001xvd.1	+	1	216	c.60C>T	c.(58-60)GGC>GGT	p.G20G	C14orf145_uc001xva.1_Intron|TSHR_uc001xvb.1_Silent_p.G20G|TSHR_uc001xvc.2_Silent_p.G20G|TSHR_uc010tvs.1_Silent_p.G20G	NM_000369	NP_000360	P16473	TSHR_HUMAN	thyroid stimulating hormone receptor isoform 1	20					cell-cell signaling|positive regulation of cell proliferation	integral to plasma membrane	protein binding|thyroid-stimulating hormone receptor activity			thyroid(289)|ovary(5)|lung(3)|kidney(1)|skin(1)	299				BRCA - Breast invasive adenocarcinoma(234;0.0402)	Thyrotropin Alfa(DB00024)	GGGACCTGGGCGGAATGGGGT	0.602			Mis		toxic thyroid adenoma	thyroid  adenoma	Hereditary nonautoimmune hyperthyroidism; subclinical hypothyroidism 						5	68					0	0	0.000602	0	0	
SEL1L	6400	broad.mit.edu	37	14	81952724	81952724	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:81952724G>A	uc010tvv.1	-	17	1824	c.1707C>T	c.(1705-1707)GGC>GGT	p.G569G		NM_005065	NP_005056	Q9UBV2	SE1L1_HUMAN	sel-1 suppressor of lin-12-like precursor	569	Lumenal (Potential).|Interaction with ERLEC1, OS9 and SYVN1.				Notch signaling pathway	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.0299)		CATTGTAATCGCCATCTTTAT	0.438													16	241					0	0	0.006122	0	0	
FLRT2	23768	broad.mit.edu	37	14	86089506	86089506	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:86089506G>A	uc001xvr.2	+	2	2415	c.1648G>A	c.(1648-1650)GCG>ACG	p.A550T	FLRT2_uc010atd.2_Missense_Mutation_p.A550T	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	550	Helical; (Potential).				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		GATCGGGGGCGCGGTGATATT	0.587													28	40					0	0	0.008361	0	0	
GALC	2581	broad.mit.edu	37	14	88401080	88401080	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:88401080C>T	uc001xvt.2	-	17	2453	c.2054G>A	c.(2053-2055)CGC>CAC	p.R685H	GALC_uc010tvw.1_Intron|GALC_uc010tvx.1_Missense_Mutation_p.R659H|GALC_uc010tvy.1_Missense_Mutation_p.R662H|GALC_uc010tvz.1_Intron	NM_000153	NP_000144	P54803	GALC_HUMAN	galactosylceramidase isoform a precursor	685					carbohydrate metabolic process|galactosylceramide catabolic process	lysosome	cation binding|galactosylceramidase activity				0						TAAGTATTAGCGTGTGGCTTC	0.403													11	68					0	0	0.001855	0	0	
GALC	2581	broad.mit.edu	37	14	88434718	88434718	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:88434718C>T	uc001xvt.2	-	8	1268	c.869G>A	c.(868-870)CGC>CAC	p.R290H	GALC_uc010tvw.1_RNA|GALC_uc010tvx.1_Missense_Mutation_p.R264H|GALC_uc010tvy.1_Missense_Mutation_p.R267H|GALC_uc010tvz.1_Missense_Mutation_p.R234H|GALC_uc001xvu.1_Missense_Mutation_p.R290H	NM_000153	NP_000144	P54803	GALC_HUMAN	galactosylceramidase isoform a precursor	290					carbohydrate metabolic process|galactosylceramide catabolic process	lysosome	cation binding|galactosylceramidase activity				0						ATTTAAAATGCGACCCCAGCA	0.343													24	101					0	0	0.003954	0	0	
C14orf102	55051	broad.mit.edu	37	14	90755095	90755095	+	Missense_Mutation	SNP	C	T	T	rs142600051		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:90755095C>T	uc001xyi.1	-	11	2655	c.2624G>A	c.(2623-2625)CGA>CAA	p.R875Q	C14orf102_uc010atp.1_Missense_Mutation_p.R380Q|C14orf102_uc001xyj.1_Missense_Mutation_p.R644Q|C14orf102_uc001xyk.1_Missense_Mutation_p.R67Q	NM_017970	NP_060440	Q9H7Z3	CN102_HUMAN	hypothetical protein LOC55051 isoform 1	875							protein binding			ovary(2)|lung(1)	3		all_cancers(154;0.118)		COAD - Colon adenocarcinoma(157;0.218)		ATAAGCCTTTCGCGCTTTCAA	0.532													13	56					0	0	0.003163	0	0	
C14orf102	55051	broad.mit.edu	37	14	90769464	90769464	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:90769464C>A	uc001xyi.1	-	6	1042	c.1011G>T	c.(1009-1011)GAG>GAT	p.E337D	C14orf102_uc010atp.1_Intron|C14orf102_uc001xyj.1_Missense_Mutation_p.E106D	NM_017970	NP_060440	Q9H7Z3	CN102_HUMAN	hypothetical protein LOC55051 isoform 1	337	HAT 1.|Potential.						protein binding			ovary(2)|lung(1)	3		all_cancers(154;0.118)		COAD - Colon adenocarcinoma(157;0.218)		TTTTCATGACCTCGTCCTCAA	0.473													12	44					0.00136819	0.00142269	0.001368	1	0	
C14orf102	55051	broad.mit.edu	37	14	90784357	90784357	+	Silent	SNP	C	T	T	rs146955955		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:90784357C>T	uc001xyi.1	-	2	196	c.165G>A	c.(163-165)CCG>CCA	p.P55P	C14orf102_uc001xyj.1_Intron	NM_017970	NP_060440	Q9H7Z3	CN102_HUMAN	hypothetical protein LOC55051 isoform 1	55							protein binding			ovary(2)|lung(1)	3		all_cancers(154;0.118)		COAD - Colon adenocarcinoma(157;0.218)		ACCTTGTCAGCGGTAACCCTT	0.418													10	80					0	0	0.008291	0	0	
CATSPERB	79820	broad.mit.edu	37	14	92076988	92076988	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:92076988C>T	uc001xzs.1	-	21	2574	c.2434G>A	c.(2434-2436)GCC>ACC	p.A812T	CATSPERB_uc010aub.1_Missense_Mutation_p.A334T	NM_024764	NP_079040	Q9H7T0	CTSRB_HUMAN	cation channel, sperm-associated, beta	812					cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				breast(2)|skin(2)|ovary(1)	5		all_cancers(154;0.0663)|all_epithelial(191;0.236)				TCAGTAGAGGCTGACCACATA	0.323													13	44					0	0	0.002450	0	0	
RIN3	79890	broad.mit.edu	37	14	93125612	93125612	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:93125612G>C	uc001yap.2	+	7	2285	c.2133G>C	c.(2131-2133)CAG>CAC	p.Q711H	RIN3_uc010auk.2_Missense_Mutation_p.Q373H|RIN3_uc001yaq.2_Missense_Mutation_p.Q636H|RIN3_uc001yar.1_Missense_Mutation_p.Q373H|RIN3_uc001yas.1_Missense_Mutation_p.Q373H	NM_024832	NP_079108	Q8TB24	RIN3_HUMAN	Ras and Rab interactor 3	711	Interaction with RAB5B.|VPS9.				endocytosis|signal transduction	cytoplasmic membrane-bounded vesicle|early endosome	GTPase activator activity|Ras GTPase binding			lung(2)|ovary(1)	3		all_cancers(154;0.0701)				CGCTGCAGCAGCTCAAGGAGA	0.547													14	160					0	0	0.001855	0	0	
RIN3	79890	broad.mit.edu	37	14	93125643	93125643	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:93125643A>G	uc001yap.2	+	7	2316	c.2164A>G	c.(2164-2166)ACC>GCC	p.T722A	RIN3_uc010auk.2_Missense_Mutation_p.T384A|RIN3_uc001yaq.2_Missense_Mutation_p.T647A|RIN3_uc001yar.1_Missense_Mutation_p.T384A|RIN3_uc001yas.1_Missense_Mutation_p.T384A	NM_024832	NP_079108	Q8TB24	RIN3_HUMAN	Ras and Rab interactor 3	722	Interaction with RAB5B.|Poly-Thr.|VPS9.				endocytosis|signal transduction	cytoplasmic membrane-bounded vesicle|early endosome	GTPase activator activity|Ras GTPase binding			lung(2)|ovary(1)	3		all_cancers(154;0.0701)				GATCCTGGCCACCACCACCAC	0.567													16	76					0	0	0.007291	0	0	
BTBD7	55727	broad.mit.edu	37	14	93708973	93708973	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:93708973C>T	uc001ybo.2	-	11	3371	c.3045G>A	c.(3043-3045)GGG>GGA	p.G1015G	BTBD7_uc010aur.2_Silent_p.G540G|BTBD7_uc010two.1_Silent_p.G835G|BTBD7_uc001ybp.2_Silent_p.G664G	NM_001002860	NP_001002860	Q9P203	BTBD7_HUMAN	BTB (POZ) domain containing 7 isoform 1	1015										pancreas(1)	1		all_cancers(154;0.08)		Epithelial(152;0.196)|COAD - Colon adenocarcinoma(157;0.212)|all cancers(159;0.223)		TGTGTAGATGCCCGTCAGGGG	0.498													6	122					0	0	0.001984	0	0	
KIAA1409	57578	broad.mit.edu	37	14	94088106	94088106	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:94088106G>A	uc001ybv.1	+	28	4145	c.4062G>A	c.(4060-4062)TCG>TCA	p.S1354S	KIAA1409_uc001ybs.1_Silent_p.S1332S	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	1509						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		ATGCAGACTCGCTTTTGTTTA	0.433													11	94					0	0	0.001368	0	0	
KIAA1409	57578	broad.mit.edu	37	14	94103626	94103626	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:94103626A>G	uc001ybv.1	+	31	5516	c.5433A>G	c.(5431-5433)GGA>GGG	p.G1811G	KIAA1409_uc001ybs.1_Silent_p.G1789G	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	1966						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		acctggagggacagccattga	0													4	51					0	0	0.009096	0	0	
KIAA1409	57578	broad.mit.edu	37	14	94120164	94120164	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:94120164G>A	uc001ybv.1	+	35	5895	c.5812G>A	c.(5812-5814)GGC>AGC	p.G1938S	KIAA1409_uc001ybs.1_Missense_Mutation_p.G1916S	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	2093						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		GGCCCCCAACGGCATCTTCCC	0.547													36	114					0	0	0.005524	0	0	
ASB2	51676	broad.mit.edu	37	14	94405768	94405768	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:94405768C>T	uc001ycc.1	-	6	1648	c.1159G>A	c.(1159-1161)GCC>ACC	p.A387T	ASB2_uc001ycb.1_Missense_Mutation_p.A81T|ASB2_uc001ycd.2_Missense_Mutation_p.A435T|ASB2_uc001yce.1_Missense_Mutation_p.A333T	NM_016150	NP_057234	Q96Q27	ASB2_HUMAN	ankyrin repeat and SOCS box-containing protein	387	ANK 10.				intracellular signal transduction					ovary(1)|pancreas(1)	2		all_cancers(154;0.13)		COAD - Colon adenocarcinoma(157;0.217)|Epithelial(152;0.232)		TTGGGGTCGGCGCCGTGTTGC	0.677													7	6					0	0	0.001984	0	0	
ASB2	51676	broad.mit.edu	37	14	94417565	94417565	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:94417565G>A	uc001ycc.1	-	4	1005	c.516C>T	c.(514-516)GCC>GCT	p.A172A	ASB2_uc001ycd.2_Silent_p.A220A|ASB2_uc001yce.1_Silent_p.A118A	NM_016150	NP_057234	Q96Q27	ASB2_HUMAN	ankyrin repeat and SOCS box-containing protein	172	ANK 4.				intracellular signal transduction					ovary(1)|pancreas(1)	2		all_cancers(154;0.13)		COAD - Colon adenocarcinoma(157;0.217)|Epithelial(152;0.232)		GAATCTTCACGGCCTCCGCGT	0.592													4	41					0	0	0.000602	0	0	
DDX24	57062	broad.mit.edu	37	14	94528700	94528700	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:94528700G>A	uc001ycj.2	-	3	1085	c.986C>T	c.(985-987)GCG>GTG	p.A329V	DDX24_uc010twq.1_Missense_Mutation_p.A286V|DDX24_uc010twr.1_Missense_Mutation_p.A79V	NM_020414	NP_065147	Q9GZR7	DDX24_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 24	329	Helicase ATP-binding.				RNA metabolic process	cytoplasm|nucleolus|nucleolus	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(2)|kidney(1)|skin(1)	4		all_cancers(154;0.12)		Epithelial(152;0.114)|all cancers(159;0.19)|COAD - Colon adenocarcinoma(157;0.207)		AAAGAGCAACGCCTGGTCTGA	0.507													42	94					0	0	0.003214	0	0	
SERPINA11	256394	broad.mit.edu	37	14	94914995	94914995	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:94914995C>T	uc001ydd.1	-	2	177	c.117G>A	c.(115-117)CAG>CAA	p.Q39Q		NM_001080451	NP_001073920	Q86U17	SPA11_HUMAN	serpin peptidase inhibitor, clade A (alpha-1	39					regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			kidney(1)	1				COAD - Colon adenocarcinoma(157;0.211)		GCTCTGAGAGCTGATGCCTGG	0.562													6	105					0	0	0.001168	0	0	
SERPINA12	145264	broad.mit.edu	37	14	94964324	94964324	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:94964324C>T	uc001ydj.2	-	3	1207	c.411G>A	c.(409-411)ACG>ACA	p.T137T		NM_173850	NP_776249	Q8IW75	SPA12_HUMAN	serine (or cysteine) proteinase inhibitor, clade	137					regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			central_nervous_system(2)|ovary(1)|lung(1)	4				COAD - Colon adenocarcinoma(157;0.235)		CAATGAACAGCGTGTTCCCAA	0.468													13	59					0	0	0.004007	0	0	
CLMN	79789	broad.mit.edu	37	14	95682030	95682030	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:95682030C>T	uc001yef.2	-	5	481	c.365G>A	c.(364-366)GGC>GAC	p.G122D		NM_024734	NP_079010	Q96JQ2	CLMN_HUMAN	calmin	122	Actin-binding.|CH 1.					integral to membrane	actin binding				0				Epithelial(152;0.193)		AGAAGGGTTGCCATCTGCTAT	0.408													5	64					0	0	0.001168	0	0	
C14orf49	161176	broad.mit.edu	37	14	95922035	95922035	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:95922035G>A	uc001yei.3	-	5	831	c.816C>T	c.(814-816)GGC>GGT	p.G272G	C14orf49_uc010avi.2_Silent_p.G272G|C14orf49_uc001yej.1_Silent_p.G272G	NM_152592	NP_689805	Q6ZMZ3	SYNE3_HUMAN	nesprin-3	272	Spectrin 1.|Cytoplasmic (Potential).				cytoskeletal anchoring at nuclear membrane	integral to membrane|nuclear outer membrane|SUN-KASH complex	actin binding			central_nervous_system(1)	1		all_cancers(154;0.0937)		COAD - Colon adenocarcinoma(157;0.245)		GAGACTCCTCGCCCCTGGGAA	0.527													7	68					0	0	0.004482	0	0	
BDKRB2	624	broad.mit.edu	37	14	96707401	96707401	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:96707401C>T	uc010avm.1	+	3	932	c.736C>T	c.(736-738)CAG>TAG	p.Q246*	BDKRB2_uc010avl.1_3'UTR|BDKRB2_uc010twu.1_Nonsense_Mutation_p.Q219*|BDKRB2_uc001yfg.2_Nonsense_Mutation_p.Q246*	NM_000623	NP_000614	P30411	BKRB2_HUMAN	bradykinin receptor B2	246	Helical; Name=5; (Potential).				arachidonic acid secretion|elevation of cytosolic calcium ion concentration|transmembrane receptor protein tyrosine kinase signaling pathway	endosome|integral to plasma membrane	bradykinin receptor activity|phosphatidylinositol phospholipase C activity|protease binding|protein heterodimerization activity|type 1 angiotensin receptor binding			ovary(3)|breast(1)|kidney(1)	5		all_cancers(154;0.0678)|Melanoma(154;0.155)|all_epithelial(191;0.179)		COAD - Colon adenocarcinoma(157;0.226)		CTGCACGATGCAGATCATGCA	0.547													6	34					0	0	0.001984	0	0	
ATG2B	55102	broad.mit.edu	37	14	96756089	96756089	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:96756089C>T	uc001yfi.2	-	41	6275	c.5910G>A	c.(5908-5910)GAG>GAA	p.E1970E		NM_018036	NP_060506	Q96BY7	ATG2B_HUMAN	ATG2 autophagy related 2 homolog B	1970										ovary(1)|kidney(1)|skin(1)	3		all_cancers(154;0.0462)|all_epithelial(191;0.123)|Melanoma(154;0.155)		Epithelial(152;0.21)|COAD - Colon adenocarcinoma(157;0.244)		TCTTCTTGGGCTCGATAGAAA	0.473													10	68					0	0	0.000978	0	0	
SETD3	84193	broad.mit.edu	37	14	99865307	99865307	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:99865307C>T	uc001ygc.2	-	13	1664	c.1494G>A	c.(1492-1494)CCG>CCA	p.P498P		NM_032233	NP_115609	Q86TU7	SETD3_HUMAN	SET domain containing 3 isoform a	498					peptidyl-lysine dimethylation|peptidyl-lysine monomethylation|peptidyl-lysine trimethylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	histone methyltransferase activity (H3-K36 specific)|transcription coactivator activity				0		all_cancers(154;0.224)|all_epithelial(191;0.0644)|Melanoma(154;0.0866)				ATTTGGGAAGCGGAGCCTTTT	0.517													7	117					0	0	0.001984	0	0	
SETD3	84193	broad.mit.edu	37	14	99932082	99932082	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:99932082A>G	uc001ygc.2	-	2	231	c.61T>C	c.(61-63)TCA>CCA	p.S21P	SETD3_uc001ygd.2_Missense_Mutation_p.S21P|SETD3_uc001ygf.2_Missense_Mutation_p.S21P	NM_032233	NP_115609	Q86TU7	SETD3_HUMAN	SET domain containing 3 isoform a	21					peptidyl-lysine dimethylation|peptidyl-lysine monomethylation|peptidyl-lysine trimethylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	histone methyltransferase activity (H3-K36 specific)|transcription coactivator activity				0		all_cancers(154;0.224)|all_epithelial(191;0.0644)|Melanoma(154;0.0866)				TCCTTTGGTGACACAGTTGCT	0.448													7	54					0	0	0.004482	0	0	
EVL	51466	broad.mit.edu	37	14	100595920	100595920	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:100595920C>T	uc001ygt.2	+	7	971	c.732C>T	c.(730-732)GGC>GGT	p.G244G	EVL_uc001ygv.2_Silent_p.G250G|EVL_uc001ygu.2_Silent_p.G246G|EVL_uc010avu.2_Silent_p.G103G	NM_016337	NP_057421	Q9UI08	EVL_HUMAN	Enah/Vasp-like	244	EVH2.				actin polymerization or depolymerization|axon guidance|cell surface receptor linked signaling pathway|organ morphogenesis	cytoskeleton|cytosol|focal adhesion|lamellipodium	actin binding|profilin binding|SH3 domain binding			large_intestine(2)|ovary(1)	3		Melanoma(154;0.152)				CATCTGGAGGCTCCAGTCCCA	0.587													4	29					0	0	0.000602	0	0	
MIR379	494328	broad.mit.edu	37	14	101488429	101488429	+	RNA	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:101488429C>T	hsa-mir-379|MI0000787	+			c.27C>T			uc010awa.1_RNA|MIR411_hsa-mir-411|MI0003675_5'Flank|uc001yjx.1_5'Flank|MIR299_hsa-mir-299|MI0000744_5'Flank|uc010awb.1_5'Flank|MIR380_hsa-mir-380|MI0000788_5'Flank																	0						GGAACGTAGGCGTTATGATTT	0.512													17	45					0	0	0.007413	0	0	
MIR134	406924	broad.mit.edu	37	14	101521030	101521030	+	RNA	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:101521030G>A	hsa-mir-134|MI0000474	+			c.7G>A			uc010txo.1_RNA|MIR668_hsa-mir-668|MI0003761_5'Flank|MIR485_hsa-mir-485|MI0002469_5'Flank|hsa-mir-323b|MI0014206_5'Flank																	0						CGTCCAGGGTGTGTGACTGGT	0.582													12	22					0	0	0.001368	0	0	
DIO3	1735	broad.mit.edu	37	14	102028655	102028655	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:102028655C>T	uc010txq.1	+	2	968	c.744C>T	c.(742-744)GGC>GGT	p.G248G	DIO3OS_uc001ykd.1_5'Flank|uc001yke.2_5'Flank|uc001ykf.2_5'Flank|uc001ykg.2_5'Flank|uc001ykh.3_5'Flank|MIR1247_hsa-mir-1247|MI0006382_5'Flank	NM_001362	NP_001353	P55073	IOD3_HUMAN	deiodinase, iodothyronine, type III	248	Extracellular (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process	endosome membrane|integral to membrane|plasma membrane	thyroxine 5'-deiodinase activity|thyroxine 5-deiodinase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		all_neural(303;0.185)				ACCAGGGCGGCCGTGGCCCCG	0.607													5	35					0	0	0.001984	0	0	
PPP2R5C	5527	broad.mit.edu	37	14	102349641	102349641	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:102349641A>G	uc001yko.2	+	4	593	c.453A>G	c.(451-453)CAA>CAG	p.Q151Q	PPP2R5C_uc010txr.1_Silent_p.Q182Q|PPP2R5C_uc001ykk.2_Silent_p.Q206Q|PPP2R5C_uc010txt.1_Silent_p.Q141Q|PPP2R5C_uc001ykn.2_Silent_p.Q151Q|PPP2R5C_uc001ykp.2_Silent_p.Q151Q|PPP2R5C_uc001ykq.2_Silent_p.Q49Q	NM_002719	NP_002710	Q13362	2A5G_HUMAN	gamma isoform of regulatory subunit B56, protein	151					DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|negative regulation of cell proliferation|proteasomal ubiquitin-dependent protein catabolic process|signal transduction	chromosome, centromeric region|nucleus|protein phosphatase type 2A complex	protein binding|protein binding|protein phosphatase type 2A regulator activity|protein phosphatase type 2A regulator activity			ovary(1)|breast(1)	2						CAGATTTCCAACCTAATATAG	0.343													19	48					0	0	0.002299	0	0	
PPP2R5C	5527	broad.mit.edu	37	14	102356590	102356590	+	Missense_Mutation	SNP	G	A	A	rs4617782		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:102356590G>A	uc001yko.2	+	6	786	c.646G>A	c.(646-648)GAG>AAG	p.E216K	PPP2R5C_uc010txr.1_Missense_Mutation_p.E247K|PPP2R5C_uc001ykk.2_Missense_Mutation_p.E271K|PPP2R5C_uc010txt.1_Missense_Mutation_p.E206K|PPP2R5C_uc001ykn.2_Missense_Mutation_p.E216K|PPP2R5C_uc001ykp.2_Missense_Mutation_p.E216K|PPP2R5C_uc001ykq.2_Missense_Mutation_p.E114K	NM_002719	NP_002710	Q13362	2A5G_HUMAN	gamma isoform of regulatory subunit B56, protein	216					DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|negative regulation of cell proliferation|proteasomal ubiquitin-dependent protein catabolic process|signal transduction	chromosome, centromeric region|nucleus|protein phosphatase type 2A complex	protein binding|protein binding|protein phosphatase type 2A regulator activity|protein phosphatase type 2A regulator activity			ovary(1)|breast(1)	2						TTATGAAACAGAGCATCATAA	0.388													24	37					0	0	0.006320	0	0	
DYNC1H1	1778	broad.mit.edu	37	14	102453010	102453010	+	Silent	SNP	C	T	T	rs145405293	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:102453010C>T	uc001yks.2	+	8	2612	c.2448C>T	c.(2446-2448)ATC>ATT	p.I816I		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	816	Stem (By similarity).				cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						AGGCCCTGATCGCAGAAGGCA	0.512													13	61					0	0	0.001855	0	0	
DYNC1H1	1778	broad.mit.edu	37	14	102469005	102469005	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:102469005G>T	uc001yks.2	+	22	4838	c.4674G>T	c.(4672-4674)AAG>AAT	p.K1558N		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	1558	Stem (By similarity).				cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						CAGATATCAAGCACCTGCTGC	0.522													13	87					1.15088e-07	1.22702e-07	0.004007	1	0	
CDC42BPB	9578	broad.mit.edu	37	14	103442313	103442313	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:103442313G>A	uc001ymi.1	-	10	1526	c.1294C>T	c.(1294-1296)CGG>TGG	p.R432W		NM_006035	NP_006026	Q9Y5S2	MRCKB_HUMAN	CDC42-binding protein kinase beta	432	Potential.				actin cytoskeleton reorganization|establishment or maintenance of cell polarity|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm|cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			large_intestine(3)|skin(3)|lung(2)|stomach(1)|breast(1)|ovary(1)	11		Melanoma(154;0.155)		Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(2;0.0419)|Epithelial(152;0.0474)|all cancers(159;0.199)		TCCAGGTCCCGCTGCACATCC	0.517													5	66					0	0	0.000602	0	0	
CDC42BPB	9578	broad.mit.edu	37	14	103447231	103447231	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:103447231G>A	uc001ymi.1	-	8	1251	c.1019C>T	c.(1018-1020)GCG>GTG	p.A340V		NM_006035	NP_006026	Q9Y5S2	MRCKB_HUMAN	CDC42-binding protein kinase beta	340	Protein kinase.				actin cytoskeleton reorganization|establishment or maintenance of cell polarity|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm|cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			large_intestine(3)|skin(3)|lung(2)|stomach(1)|breast(1)|ovary(1)	11		Melanoma(154;0.155)		Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(2;0.0419)|Epithelial(152;0.0474)|all cancers(159;0.199)		TTCAAAAAACGCATGCTTTTT	0.453													21	72					0	0	0.002780	0	0	
MARK3	4140	broad.mit.edu	37	14	103941507	103941507	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:103941507C>T	uc001ymz.3	+	13	2108	c.1442C>T	c.(1441-1443)GCG>GTG	p.A481V	MARK3_uc001ymx.3_Missense_Mutation_p.A481V|MARK3_uc001ymw.3_Missense_Mutation_p.A481V|MARK3_uc001yna.3_Missense_Mutation_p.A465V|MARK3_uc001ymy.3_Missense_Mutation_p.A402V|MARK3_uc010awp.2_Missense_Mutation_p.A504V|MARK3_uc010tyb.1_Missense_Mutation_p.A276V|MARK3_uc010awq.2_Missense_Mutation_p.A11V	NM_001128918	NP_001122390	P27448	MARK3_HUMAN	MAP/microtubule affinity-regulating kinase 3	481							ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|stomach(1)	4		Melanoma(154;0.155)	Epithelial(46;0.241)			CCTAATAAGGCGGATATTCCT	0.483													11	56					0	0	0.002450	0	0	
ZFYVE21	79038	broad.mit.edu	37	14	104194182	104194182	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:104194182G>A	uc001yoc.2	+	3	323	c.289G>A	c.(289-291)GCG>ACG	p.A97T	ZFYVE21_uc001yod.2_Missense_Mutation_p.A97T	NM_024071	NP_076976	Q9BQ24	ZFY21_HUMAN	zinc finger, FYVE domain containing 21	97	FYVE-type.					cytoplasmic membrane-bounded vesicle|focal adhesion	metal ion binding				0		Melanoma(154;0.226)		Epithelial(152;0.245)		GCGGCAGTGCGCGGAGTGCGC	0.662													8	23					0	0	0.003080	0	0	
ADSSL1	122622	broad.mit.edu	37	14	105208225	105208225	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:105208225C>T	uc001ypd.2	+	9	908	c.834C>T	c.(832-834)GGC>GGT	p.G278G	INF2_uc010tyi.1_Intron|ADSSL1_uc001ype.2_Silent_p.G321G|ADSSL1_uc001ypf.2_RNA	NM_152328	NP_689541	Q8N142	PURA1_HUMAN	adenylosuccinate synthase like 1 isoform 2	278					AMP biosynthetic process|immune system process|purine base metabolic process	cytosol	adenylosuccinate synthase activity|GTP binding|magnesium ion binding|phosphate binding			ovary(1)|central_nervous_system(1)	2		all_cancers(154;0.0896)|Melanoma(154;0.155)|all_epithelial(191;0.172)	all cancers(16;0.00153)|OV - Ovarian serous cystadenocarcinoma(23;0.0148)|Epithelial(46;0.0396)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.18)	L-Aspartic Acid(DB00128)	GCACCGTGGGCGGTGTGTGCA	0.602													29	61					0	0	0.002836	0	0	
AHNAK2	113146	broad.mit.edu	37	14	105406357	105406357	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:105406357C>T	uc010axc.1	-	7	15551	c.15431G>A	c.(15430-15432)AGC>AAC	p.S5144N	AHNAK2_uc001ypx.2_Missense_Mutation_p.S5044N	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	5144						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			ACAAGGCTGGCTCACTGGGAC	0.582													20	65					0	0	0.008871	0	0	
AHNAK2	113146	broad.mit.edu	37	14	105413326	105413326	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:105413326G>A	uc010axc.1	-	7	8582	c.8462C>T	c.(8461-8463)CCG>CTG	p.P2821L	AHNAK2_uc001ypx.2_Missense_Mutation_p.P2721L	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2821						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CCCGAATGACGGCATCTTGAA	0.607													80	231					0	0	0.003610	0	0	
AHNAK2	113146	broad.mit.edu	37	14	105415885	105415885	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:105415885G>A	uc010axc.1	-	7	6023	c.5903C>T	c.(5902-5904)GCG>GTG	p.A1968V	AHNAK2_uc001ypx.2_Missense_Mutation_p.A1868V	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	1968						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CTCCAGCCGCGCACCATCCAG	0.592													42	138					0	0	0.003610	0	0	
CDCA4	55038	broad.mit.edu	37	14	105478028	105478028	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:105478028C>T	uc001yqa.2	-	2	335	c.239G>A	c.(238-240)CGC>CAC	p.R80H	CDCA4_uc001yqb.2_Missense_Mutation_p.R80H	NM_145701	NP_663747	Q9BXL8	CDCA4_HUMAN	cell division cycle associated 4	80						nucleus				ovary(1)	1		all_cancers(154;0.0798)|Melanoma(154;0.155)|all_epithelial(191;0.183)	OV - Ovarian serous cystadenocarcinoma(23;0.00778)|all cancers(16;0.00936)|Epithelial(46;0.0227)	Epithelial(152;0.142)		TGCCACTGTGCGCCACGTCCC	0.652													4	28					0	0	0.009096	0	0	
GPR132	29933	broad.mit.edu	37	14	105517738	105517738	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:105517738C>T	uc001yqd.2	-	4	1635	c.736G>A	c.(736-738)GCG>ACG	p.A246T	GPR132_uc001yqc.2_Missense_Mutation_p.A58T|GPR132_uc001yqe.2_Missense_Mutation_p.A237T	NM_013345	NP_037477	Q9UNW8	GP132_HUMAN	G protein-coupled receptor 132	246	Cytoplasmic (Potential).				response to stress	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(2)|central_nervous_system(1)	3		all_cancers(154;0.0953)|Melanoma(154;0.155)|all_epithelial(191;0.219)	OV - Ovarian serous cystadenocarcinoma(23;0.00778)|all cancers(16;0.00936)|Epithelial(46;0.0227)	Epithelial(152;0.02)|all cancers(159;0.0419)|OV - Ovarian serous cystadenocarcinoma(161;0.0521)		ACAACCACCGCGATGGCCGAG	0.567													22	29					0	0	0.002780	0	0	
JAG2	3714	broad.mit.edu	37	14	105618517	105618517	+	Silent	SNP	G	A	A	rs138120492		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:105618517G>A	uc001yqg.2	-	6	1304	c.900C>T	c.(898-900)GGC>GGT	p.G300G	JAG2_uc001yqf.2_5'Flank|JAG2_uc001yqh.2_Silent_p.G300G	NM_002226	NP_002217	Q9Y219	JAG2_HUMAN	jagged 2 isoform a precursor	300	Extracellular (Potential).|EGF-like 2; atypical.				auditory receptor cell fate commitment|cell communication|cell cycle|Notch receptor processing|Notch signaling pathway|regulation of cell migration|regulation of cell proliferation|spermatogenesis|thymic T cell selection	integral to plasma membrane	calcium ion binding|growth factor activity|Notch binding			lung(3)|breast(2)	5		all_cancers(154;0.0336)|all_epithelial(191;0.0729)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00989)|all cancers(16;0.0114)|Epithelial(46;0.0272)	Epithelial(152;0.047)|OV - Ovarian serous cystadenocarcinoma(161;0.148)|all cancers(159;0.208)		AGAGCAGGCCGCCCCAGTTGG	0.642													7	40					0	0	0.000978	0	0	
BRF1	2972	broad.mit.edu	37	14	105707625	105707625	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:105707625C>T	uc001yqp.2	-	6	1034	c.671G>A	c.(670-672)CGC>CAC	p.R224H	BRF1_uc010tyo.1_Missense_Mutation_p.R109H|BRF1_uc010typ.1_Missense_Mutation_p.R109H|BRF1_uc001yql.2_Missense_Mutation_p.R20H|BRF1_uc001yqo.2_Intron|BRF1_uc010axg.1_Missense_Mutation_p.R197H|BRF1_uc001yqn.2_RNA|BRF1_uc010axh.1_RNA|BRF1_uc010axj.1_Intron	NM_001519	NP_001510	Q92994	TF3B_HUMAN	transcription initiation factor IIIB isoform 1	224	2.			R -> G (in Ref. 1; AAC50170).	positive regulation of transcription, DNA-dependent|rRNA transcription|transcription initiation from RNA polymerase III promoter|tRNA transcription	transcription factor TFIIIB complex	translation initiation factor activity|zinc ion binding			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4		all_cancers(154;0.0231)|all_epithelial(191;0.0694)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00753)|all cancers(16;0.00925)|Epithelial(46;0.0221)	Epithelial(152;0.14)		GCCCGAGGGGCGCCGGCCTGT	0.652													7	5					0	0	0.003080	0	0	
BTBD6	90135	broad.mit.edu	37	14	105716187	105716187	+	Silent	SNP	C	T	T	rs147665481	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:105716187C>T	uc010tyq.1	+	5	744	c.636C>T	c.(634-636)GAC>GAT	p.D212D	BRF1_uc010tyo.1_Intron|BRF1_uc010typ.1_Intron|BRF1_uc001yql.2_5'Flank|BRF1_uc001yqo.2_5'Flank|BRF1_uc010axg.1_Intron|BRF1_uc001yqp.2_Intron|BRF1_uc001yqn.2_5'Flank|BRF1_uc010axh.1_5'Flank|BRF1_uc010axj.1_5'Flank	NM_033271	NP_150374	Q96KE9	BTBD6_HUMAN	BTB domain protein BDPL	212						cytoplasmic mRNA processing body					0		Melanoma(154;0.226)	OV - Ovarian serous cystadenocarcinoma(23;0.0163)|Epithelial(46;0.0391)	Epithelial(152;0.18)		AGGTCATTGACGCACAGGCCG	0.607													7	18					0	0	0.003080	0	0	
ADAM6	8755	broad.mit.edu	37	14	106235811	106235811	+	RNA	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:106235811G>A	uc010tyt.1	-	3617		c.58036C>T			uc001yrs.2_Intron|uc001yrt.2_Intron|uc001yrw.1_Intron|uc001yrx.1_Intron|uc001yrz.1_Intron|uc001yse.2_Intron|uc001ysf.2_Intron|uc001ysh.1_RNA|uc001ysi.1_RNA					Parts of antibodies, mostly variable regions.												0						AGAAGCCTTTGACCAGGCAGG	0.632													18	72					0	0	0.003271	0	0	
ADAM6	8755	broad.mit.edu	37	14	106641745	106641745	+	RNA	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:106641745G>A	uc010tyt.1	-	1021		c.24256C>T								Parts of antibodies, mostly variable regions.												0						GGGGCCTGTCGCACCCAGCTG	0.552													66	108					0	0	0.003610	0	0	
ADAM6	8755	broad.mit.edu	37	14	106725333	106725333	+	RNA	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:106725333A>G	uc010tyt.1	-	588		c.18214T>C								Parts of antibodies, mostly variable regions.												0						TGCTACCACCACTACCACTAA	0.552													25	201					0	0	0.003271	0	0	
ADAM6	8755	broad.mit.edu	37	14	106845337	106845337	+	RNA	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:106845337A>G	uc010tyt.1	-	308		c.12315T>C								Parts of antibodies, mostly variable regions.												0						ACACAGTAATACACAGCCGTG	0.547													34	91					0	0	0.004289	0	0	
ADAM6	8755	broad.mit.edu	37	14	106967231	106967231	+	RNA	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:106967231G>A	uc010tyt.1	-	201		c.9210C>T								Parts of antibodies, mostly variable regions.												0						GGGGCCTGTCGCACCCAGTGC	0.557													32	126					0	0	0.007835	0	0	
Unknown	0	broad.mit.edu	37	15	20496632	20496632	+	RNA	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:20496632A>C	uc001ytf.1	+	6		c.685A>C								full-length cDNA clone CS0DI026YN18 of Placenta Cot 25-normalized of Homo sapiens (human).																		ATGAAGGGGAAGCCGAGGGTG	0.438													5	59					0	0	0.001168	0	0	
OR4N4	283694	broad.mit.edu	37	15	22383015	22383015	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:22383015C>A	uc001yuc.1	+	7	1524	c.543C>A	c.(541-543)GTC>GTA	p.V181V	LOC727924_uc001yub.1_Intron|OR4N4_uc010tzv.1_Silent_p.V181V	NM_001005241	NP_001005241	Q8N0Y3	OR4N4_HUMAN	olfactory receptor, family 4, subfamily N,	181	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		TCTGTGATGTCCGACAGGTCA	0.527													15	97					8.28177e-16	9.02131e-16	0.007413	1	0	
CYFIP1	23191	broad.mit.edu	37	15	22945147	22945147	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:22945147G>A	uc001yus.2	+	12	1322	c.1218G>A	c.(1216-1218)GCG>GCA	p.A406A	CYFIP1_uc001yut.2_Silent_p.A406A|CYFIP1_uc010aya.1_Silent_p.A434A	NM_014608	NP_055423	Q7L576	CYFP1_HUMAN	cytoplasmic FMR1 interacting protein 1 isoform	406					axon extension|lamellipodium assembly|regulation of cell shape|ruffle organization	cell junction|lamellipodium|mRNA cap binding complex|perinuclear region of cytoplasm|ruffle|synapse|synaptosome	actin filament binding|Rac GTPase binding			ovary(4)|pancreas(3)|liver(1)|skin(1)	9		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.22e-06)|Epithelial(43;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00101)		AGTGGAGCGCGCACGTGATGG	0.632													7	10					0	0	0.003080	0	0	
CYFIP1	23191	broad.mit.edu	37	15	22997826	22997826	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:22997826C>T	uc001yus.2	+	27	3176	c.3072C>T	c.(3070-3072)CAC>CAT	p.H1024H	CYFIP1_uc001yut.2_Silent_p.H1024H|CYFIP1_uc001yuu.2_Silent_p.H593H|CYFIP1_uc001yuv.2_Silent_p.H218H	NM_014608	NP_055423	Q7L576	CYFP1_HUMAN	cytoplasmic FMR1 interacting protein 1 isoform	1024					axon extension|lamellipodium assembly|regulation of cell shape|ruffle organization	cell junction|lamellipodium|mRNA cap binding complex|perinuclear region of cytoplasm|ruffle|synapse|synaptosome	actin filament binding|Rac GTPase binding			ovary(4)|pancreas(3)|liver(1)|skin(1)	9		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.22e-06)|Epithelial(43;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00101)		ACCTGCTGCACGCGGCTCCTT	0.567													14	173					0	0	0.004007	0	0	
HERC2P2	400322	broad.mit.edu	37	15	23300044	23300044	+	RNA	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:23300044G>A	uc001yvq.2	-	4		c.1461C>T			HERC2P2_uc001yvo.3_RNA|HERC2P2_uc001yvp.3_RNA					Homo sapiens mRNA for KIAA0393 protein, partial cds.												0						GACTGCTTGCGCCTCTTCACT	0.592													3	9					0	0	0.004672	0	0	
Unknown	0	broad.mit.edu	37	15	23687625	23687625	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:23687625C>T	uc001ywg.1	-	6	684	c.586G>A	c.(586-588)GCC>ACC	p.A196T	uc010ayh.1_RNA					RecName: Full=Golgin subfamily A member 6-like protein 2;																		AGACTCAGGGCGTCCCTCTCC	0.577													5	32					0	0	0.001168	0	0	
NDN	4692	broad.mit.edu	37	15	23931741	23931741	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:23931741G>A	uc001ywk.2	-	1	710	c.624C>T	c.(622-624)AGC>AGT	p.S208S		NM_002487	NP_002478	Q99608	NECD_HUMAN	necdin	208	MAGE.				negative regulation of cell proliferation|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perikaryon	DNA binding				0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;8.37e-11)|Epithelial(43;9.29e-10)|BRCA - Breast invasive adenocarcinoma(123;0.00179)|GBM - Glioblastoma multiforme(186;0.018)|Lung(196;0.153)		TCCAGACGGCGCTCTCTCTGG	0.637									Prader-Willi_syndrome				4	15					0	0	0.000602	0	0	
NDN	4692	broad.mit.edu	37	15	23932398	23932398	+	Translation_Start_Site	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:23932398G>A	uc001ywk.2	-	1	53	c.-33C>T	c.(-35--31)GACGC>GATGC			NM_002487	NP_002478	Q99608	NECD_HUMAN	necdin						negative regulation of cell proliferation|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perikaryon	DNA binding				0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;8.37e-11)|Epithelial(43;9.29e-10)|BRCA - Breast invasive adenocarcinoma(123;0.00179)|GBM - Glioblastoma multiforme(186;0.018)|Lung(196;0.153)		GGGCCTCTGCGTCCAGGAGCT	0.672									Prader-Willi_syndrome				4	8					0	0	0.009096	0	0	
C15orf2	23742	broad.mit.edu	37	15	24922492	24922492	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:24922492T>A	uc001ywo.2	+	1	1952	c.1478T>A	c.(1477-1479)CTC>CAC	p.L493H		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	493	Pro-rich.				cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		GCAGCGCCTCTCACTTCTGAC	0.527													65	161					0	0	0.003610	0	0	
Unknown	0	broad.mit.edu	37	15	25427436	25427436	+	RNA	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:25427436G>A	uc001yyy.1	+	3		c.266G>A			uc001yza.1_5'Flank|SNORD115-7_uc001yyw.1_RNA|SNORD115-7_uc001yyz.2_5'Flank					Homo sapiens clone Rt-7 SNURF-SNRPN mRNA, downstream untranslated exons, alternatively spliced.																		ACTGAAGATCGGGCCCTTCCT	0.637													14	38					0	0	0.002450	0	0	
ATP10A	57194	broad.mit.edu	37	15	25932965	25932965	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:25932965G>A	uc010ayu.2	-	16	3282	c.3176C>T	c.(3175-3177)GCC>GTC	p.A1059V		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	1059	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		AAAGTCGCTGGCCATCACTGC	0.517													7	126					0	0	0.006214	0	0	
HERC2	8924	broad.mit.edu	37	15	28366571	28366571	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:28366571G>A	uc001zbj.2	-	86	13299	c.13193C>T	c.(13192-13194)GCG>GTG	p.A4398V		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	4398					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		CCGGAAAGCCGCCTCCTAAAA	0.433													16	27					0	0	0.006122	0	0	
HERC2	8924	broad.mit.edu	37	15	28389918	28389918	+	Missense_Mutation	SNP	G	A	A	rs143963667		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:28389918G>A	uc001zbj.2	-	72	11147	c.11041C>T	c.(11041-11043)CGC>TGC	p.R3681C		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	3681					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		CCTGGGATGCGCAGCTCGCTG	0.577													4	26					0	0	0.009096	0	0	
HERC2	8924	broad.mit.edu	37	15	28501354	28501354	+	Missense_Mutation	SNP	G	A	A	rs149493788		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:28501354G>A	uc001zbj.2	-	18	2733	c.2627C>T	c.(2626-2628)GCG>GTG	p.A876V	HERC2_uc001zbl.1_Missense_Mutation_p.A571V	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	876					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		CAGCACGCCCGCACTGCTGGC	0.667													4	13					0	0	0.001984	0	0	
APBA2	321	broad.mit.edu	37	15	29397673	29397673	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:29397673G>A	uc001zck.2	+	10	1823	c.1616G>A	c.(1615-1617)AGC>AAC	p.S539N	APBA2_uc010azj.2_Missense_Mutation_p.S527N|APBA2_uc010uat.1_Missense_Mutation_p.S527N|APBA2_uc001zcl.2_Missense_Mutation_p.S527N	NM_005503	NP_005494	Q99767	APBA2_HUMAN	amyloid beta A4 precursor protein-binding,	539	PID.				nervous system development|protein transport		protein binding				0		all_lung(180;1.73e-12)|Breast(32;2.89e-05)|Colorectal(260;0.234)		all cancers(64;7.44e-11)|Epithelial(43;5.74e-10)|GBM - Glioblastoma multiforme(186;0.026)|BRCA - Breast invasive adenocarcinoma(123;0.0286)|Lung(196;0.24)		GAAGACTTGAGCCAGAAGGAA	0.562													5	28					0	0	0.001168	0	0	
MTMR10	54893	broad.mit.edu	37	15	31253201	31253201	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:31253201C>T	uc001zfh.1	-	7	739	c.641G>A	c.(640-642)AGC>AAC	p.S214N	MTMR10_uc010azx.1_5'UTR|MTMR10_uc001zfi.1_5'UTR|MTMR10_uc001zfj.2_Missense_Mutation_p.S132N|MTMR10_uc001zfk.2_5'UTR|MTMR10_uc010ubl.1_RNA	NM_017762	NP_060232	Q9NXD2	MTMRA_HUMAN	myotubularin related protein 10	214							phosphatase activity	p.R214Q(1)		ovary(1)	1		all_lung(180;2.81e-11)		all cancers(64;7.26e-15)|Epithelial(43;7.2e-11)|GBM - Glioblastoma multiforme(186;0.000158)|BRCA - Breast invasive adenocarcinoma(123;0.00426)|Lung(196;0.174)		TTTCTGGCTGCTGCCACCACC	0.373													3	6					0	0	0.004672	0	0	
TRPM1	4308	broad.mit.edu	37	15	31358383	31358383	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:31358383G>A	uc001zfm.2	-	6	748	c.620C>T	c.(619-621)ACC>ATC	p.T207I	TRPM1_uc010azy.2_Missense_Mutation_p.T120I|TRPM1_uc001zfl.2_RNA|uc010ubm.1_5'Flank|MIR211_hsa-mir-211|MI0000287_5'Flank	NM_002420	NP_002411	Q7Z4N2	TRPM1_HUMAN	transient receptor potential cation channel,	207	Extracellular (Potential).				cellular response to light stimulus|visual perception	integral to plasma membrane	calcium channel activity|receptor activity			ovary(2)|pancreas(1)|skin(1)	4		all_lung(180;1.92e-11)		all cancers(64;3.52e-16)|Epithelial(43;1.65e-11)|GBM - Glioblastoma multiforme(186;3.57e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00533)|COAD - Colon adenocarcinoma(236;0.0609)|Lung(196;0.199)		GATGAAGTGGGTGTGGGAGTT	0.532													4	73					0	0	0.009096	0	0	
TRPM1	4308	broad.mit.edu	37	15	31362319	31362319	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:31362319G>T	uc001zfm.2	-	3	256	c.128C>A	c.(127-129)TCT>TAT	p.S43Y	TRPM1_uc010azy.2_5'Flank|TRPM1_uc001zfl.2_5'Flank|TRPM1_uc001zfn.3_Missense_Mutation_p.S43Y|uc010ubn.1_RNA	NM_002420	NP_002411	Q7Z4N2	TRPM1_HUMAN	transient receptor potential cation channel,	43	Extracellular (Potential).				cellular response to light stimulus|visual perception	integral to plasma membrane	calcium channel activity|receptor activity			ovary(2)|pancreas(1)|skin(1)	4		all_lung(180;1.92e-11)		all cancers(64;3.52e-16)|Epithelial(43;1.65e-11)|GBM - Glioblastoma multiforme(186;3.57e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00533)|COAD - Colon adenocarcinoma(236;0.0609)|Lung(196;0.199)		CTTGGCAACAGACCATTTCTC	0.502													29	408					1.39806e-14	1.52068e-14	0.008361	1	0	
FMN1	342184	broad.mit.edu	37	15	33256409	33256409	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:33256409G>A	uc001zhf.3	-	5	2368	c.2368C>T	c.(2368-2370)CGG>TGG	p.R790W		NM_001103184	NP_001096654	Q68DA7	FMN1_HUMAN	formin 1	1013	FH2.				actin cytoskeleton organization	actin cytoskeleton|adherens junction|cytoplasm|nucleus	actin binding			ovary(1)	1		all_lung(180;1.14e-07)		all cancers(64;3.05e-15)|Epithelial(43;1.67e-10)|GBM - Glioblastoma multiforme(186;4.95e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0262)		CTGGGGTCCCGAATGTCAGGT	0.373													32	63					0	0	0.002836	0	0	
RYR3	6263	broad.mit.edu	37	15	34072492	34072492	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:34072492G>A	uc001zhi.2	+	65	9288	c.9218G>A	c.(9217-9219)CGC>CAC	p.R3073H	RYR3_uc010bar.2_Missense_Mutation_p.R3073H	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	3073					cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		ACCCTTAATCGCTACAATCCA	0.532													7	31					0	0	0.003080	0	0	
RYR3	6263	broad.mit.edu	37	15	34130165	34130165	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:34130165C>T	uc001zhi.2	+	89	12054	c.11984C>T	c.(11983-11985)GCT>GTT	p.A3995V	RYR3_uc010bar.2_Missense_Mutation_p.A3990V	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	3995					cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TTTAATGTGGCTGTGTTATTG	0.448													14	138					0	0	0.003163	0	0	
RYR3	6263	broad.mit.edu	37	15	34134153	34134153	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:34134153C>T	uc001zhi.2	+	91	13196	c.13126C>T	c.(13126-13128)CGG>TGG	p.R4376W	RYR3_uc010bar.2_Missense_Mutation_p.R4371W	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	4376					cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GAAGAAGCGGCGGTGTGGTCA	0.458													6	19					0	0	0.001984	0	0	
C15orf24	56851	broad.mit.edu	37	15	34393956	34393956	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:34393956C>T	uc001zhm.2	-	1	98	c.85G>A	c.(85-87)GCT>ACT	p.A29T	C15orf24_uc001zhn.2_5'UTR|PGBD4_uc001zho.2_5'Flank	NM_020154	NP_064539	Q9NPA0	CO024_HUMAN	chromosome 15 open reading frame 24 precursor	29	Extracellular (Potential).					cytoplasm|integral to membrane	carbohydrate binding|carboxypeptidase activity|purine nucleotide binding				0		all_lung(180;1.76e-08)		all cancers(64;2.02e-17)|GBM - Glioblastoma multiforme(113;2.15e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)		TCAGCAGCAGCCCCGGGCACC	0.637													22	46					0	0	0.004656	0	0	
AQR	9716	broad.mit.edu	37	15	35182477	35182477	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:35182477G>A	uc001ziv.2	-	24	2801	c.2620C>T	c.(2620-2622)CGC>TGC	p.R874C		NM_014691	NP_055506	O60306	AQR_HUMAN	aquarius	874						catalytic step 2 spliceosome	RNA binding			large_intestine(1)	1		Lung NSC(122;8.7e-10)|all_lung(180;1.47e-08)		all cancers(64;4.34e-18)|GBM - Glioblastoma multiforme(113;4.59e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0283)		AGTAGGTGGCGCTCATCAATG	0.433													8	158					0	0	0.006214	0	0	
ZNF770	54989	broad.mit.edu	37	15	35274899	35274899	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:35274899G>A	uc001ziw.2	-	3	1048	c.737C>T	c.(736-738)GCT>GTT	p.A246V		NM_014106	NP_054825	Q6IQ21	ZN770_HUMAN	zinc finger protein 770	246					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(122;4.59e-10)|all_lung(180;8.78e-09)		all cancers(64;1.97e-18)|GBM - Glioblastoma multiforme(113;2.11e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0643)		TAATAAAAGAGCCCGAAAAGC	0.368													16	40					0	0	0.004990	0	0	
MEIS2	4212	broad.mit.edu	37	15	37184485	37184485	+	Silent	SNP	G	A	A	rs139991974		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:37184485G>A	uc001zjr.2	-	12	2360	c.1323C>T	c.(1321-1323)CAC>CAT	p.H441H	MEIS2_uc001zjl.2_3'UTR|MEIS2_uc010ucj.1_Silent_p.H421H|MEIS2_uc001zjm.2_3'UTR|MEIS2_uc001zjn.2_3'UTR|MEIS2_uc001zjo.2_3'UTR|MEIS2_uc001zjp.2_3'UTR|MEIS2_uc001zjs.2_Silent_p.H434H|MEIS2_uc001zju.2_3'UTR|MEIS2_uc001zjt.2_Silent_p.H434H|MEIS2_uc001zjj.2_Silent_p.H137H|MEIS2_uc001zjk.2_Silent_p.H130H	NM_170675	NP_733775	O14770	MEIS2_HUMAN	Meis homeobox 2 isoform c	441					negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)	2		all_epithelial(112;9.77e-14)|Lung NSC(122;1.42e-09)|all_lung(180;2.2e-08)|Ovarian(310;0.134)|Melanoma(134;0.155)		all cancers(64;9.33e-21)|GBM - Glioblastoma multiforme(113;1.71e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0288)		GGGGTCCTCCGTGCATCATCA	0.522													12	206					0	0	0.004007	0	0	
RASGRP1	10125	broad.mit.edu	37	15	38800067	38800067	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:38800067C>A	uc001zke.3	-	9	1280	c.1102G>T	c.(1102-1104)GCC>TCC	p.A368S	RASGRP1_uc010bbe.2_RNA|RASGRP1_uc010bbf.2_Missense_Mutation_p.A230S|RASGRP1_uc010bbg.2_Missense_Mutation_p.A230S|RASGRP1_uc001zkd.3_Missense_Mutation_p.A368S	NM_005739	NP_005730	O95267	GRP1_HUMAN	RAS guanyl releasing protein 1 isoform a	368	Ras-GEF.				cell differentiation|platelet activation|Ras protein signal transduction|regulation of small GTPase mediated signal transduction	cytosol|endoplasmic reticulum membrane|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|lipid binding|protein binding			large_intestine(1)|ovary(1)	2		all_cancers(109;6.38e-17)|all_epithelial(112;5.51e-15)|Lung NSC(122;2.12e-11)|all_lung(180;5.63e-10)|Melanoma(134;0.0574)		GBM - Glioblastoma multiforme(113;1.97e-07)|BRCA - Breast invasive adenocarcinoma(123;0.00248)		TCAGGCATGGCTTCATACAGG	0.517													15	19					2.32078e-09	2.48856e-09	0.003163	1	0	
C15orf53	400359	broad.mit.edu	37	15	38990598	38990598	+	Missense_Mutation	SNP	G	A	A	rs143270407	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:38990598G>A	uc001zkf.1	+	2	402	c.392G>A	c.(391-393)CGC>CAC	p.R131H		NM_207444	NP_997327	Q8NAA6	CO053_HUMAN	hypothetical protein LOC400359	131											0		all_cancers(109;1.75e-13)|all_epithelial(112;1.02e-11)|Lung NSC(122;1.9e-09)|all_lung(180;4.04e-08)|Melanoma(134;0.091)|Colorectal(260;0.198)		GBM - Glioblastoma multiforme(113;8.39e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0321)		ACTGTGCCCCGCCGTTCACCA	0.552													6	12					0	0	0.004482	0	0	
THBS1	7057	broad.mit.edu	37	15	39885659	39885659	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:39885659C>T	uc001zkh.2	+	19	3236	c.3057C>T	c.(3055-3057)GAC>GAT	p.D1019D	THBS1_uc010bbi.2_Silent_p.D491D	NM_003246	NP_003237	P07996	TSP1_HUMAN	thrombospondin 1 precursor	1019	TSP C-terminal.				activation of MAPK activity|anti-apoptosis|apoptosis|cell adhesion|cell cycle arrest|cell migration|cellular response to heat|chronic inflammatory response|engulfment of apoptotic cell|immune response|induction of apoptosis|negative regulation of angiogenesis|negative regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|negative regulation of blood vessel endothelial cell migration|negative regulation of caspase activity|negative regulation of cGMP-mediated signaling|negative regulation of dendritic cell antigen processing and presentation|negative regulation of endothelial cell proliferation|negative regulation of fibrinolysis|negative regulation of fibroblast growth factor receptor signaling pathway|negative regulation of focal adhesion assembly|negative regulation of interleukin-12 production|negative regulation of nitric oxide mediated signal transduction|negative regulation of plasma membrane long-chain fatty acid transport|negative regulation of plasminogen activation|peptide cross-linking|platelet activation|platelet degranulation|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of fibroblast migration|positive regulation of macrophage activation|positive regulation of macrophage chemotaxis|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transforming growth factor-beta1 production|positive regulation of translation|positive regulation of tumor necrosis factor biosynthetic process|response to calcium ion|response to drug|response to glucose stimulus|response to hypoxia|response to magnesium ion|response to progesterone stimulus|sprouting angiogenesis	external side of plasma membrane|extracellular matrix|fibrinogen complex|platelet alpha granule lumen	calcium ion binding|collagen V binding|eukaryotic cell surface binding|fibrinogen binding|fibroblast growth factor 2 binding|fibronectin binding|heparin binding|identical protein binding|integrin binding|laminin binding|low-density lipoprotein particle binding|phosphatidylserine binding|proteoglycan binding|structural molecule activity|transforming growth factor beta binding			ovary(3)|central_nervous_system(3)	6		all_cancers(109;1.35e-17)|all_epithelial(112;2.07e-15)|Lung NSC(122;4.44e-11)|all_lung(180;1.11e-09)|Melanoma(134;0.0574)|Colorectal(260;0.117)|Ovarian(310;0.223)		GBM - Glioblastoma multiforme(113;2.77e-06)|BRCA - Breast invasive adenocarcinoma(123;0.105)	Becaplermin(DB00102)	CCGAAAGGGACGATGACTATG	0.502													17	167					0	0	0.008871	0	0	
GPR176	11245	broad.mit.edu	37	15	40094085	40094085	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:40094085C>T	uc001zkj.1	-	3	1662	c.796G>A	c.(796-798)GCC>ACC	p.A266T	GPR176_uc010uck.1_Missense_Mutation_p.A206T	NM_007223	NP_009154	Q14439	GP176_HUMAN	G protein-coupled receptor 176	266	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity			ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		all_cancers(109;4.05e-15)|all_epithelial(112;2.96e-13)|Lung NSC(122;8.53e-11)|all_lung(180;2.71e-09)|Melanoma(134;0.091)|Colorectal(260;0.198)|Ovarian(310;0.243)		GBM - Glioblastoma multiforme(113;4.4e-06)|BRCA - Breast invasive adenocarcinoma(123;0.123)		AGCAGGGTGGCGTGCAGCTCG	0.582											OREG0023053	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	31					0	0	0.002450	0	0	
PLCB2	5330	broad.mit.edu	37	15	40585208	40585208	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:40585208C>T	uc001zld.2	-	21	2546	c.2245G>A	c.(2245-2247)GCC>ACC	p.A749T	PLCB2_uc001zlc.2_5'Flank|PLCB2_uc010bbo.2_Missense_Mutation_p.A745T|PLCB2_uc010ucm.1_Missense_Mutation_p.A749T	NM_004573	NP_004564	Q00722	PLCB2_HUMAN	phospholipase C, beta 2	749	C2.				activation of phospholipase C activity|intracellular signal transduction|lipid catabolic process|phospholipid metabolic process|synaptic transmission	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(3)|breast(3)|kidney(1)|pancreas(1)	8		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;9.38e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0508)		CTGAGGGAGGCCAGCTCAGGC	0.577													12	29					0	0	0.008871	0	0	
PLCB2	5330	broad.mit.edu	37	15	40591154	40591154	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:40591154G>A	uc001zld.2	-	9	996	c.695C>T	c.(694-696)GCC>GTC	p.A232V	PLCB2_uc010bbo.2_Missense_Mutation_p.A232V|PLCB2_uc010ucm.1_Missense_Mutation_p.A232V	NM_004573	NP_004564	Q00722	PLCB2_HUMAN	phospholipase C, beta 2	232					activation of phospholipase C activity|intracellular signal transduction|lipid catabolic process|phospholipid metabolic process|synaptic transmission	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(3)|breast(3)|kidney(1)|pancreas(1)	8		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;9.38e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0508)		GTAGGGTTTGGCCTTAGCATG	0.572													8	81					0	0	0.003080	0	0	
CASC5	57082	broad.mit.edu	37	15	40937938	40937938	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:40937938G>A	uc010bbs.1	+	17	6213	c.6052G>A	c.(6052-6054)GCT>ACT	p.A2018T	CASC5_uc010bbt.1_Missense_Mutation_p.A1992T	NM_170589	NP_733468	Q8NG31	CASC5_HUMAN	cancer susceptibility candidate 5 isoform 1	2018	Necessary for kinetochore localization and for interaction with NSL1 and DSN1.|Potential.				acrosome assembly|attachment of spindle microtubules to kinetochore|cell division|CenH3-containing nucleosome assembly at centromere|mitotic prometaphase|spindle assembly checkpoint	acrosomal vesicle|condensed chromosome kinetochore|cytosol|nucleoplasm	protein binding			breast(3)|central_nervous_system(1)|skin(1)	5		all_cancers(109;2.03e-18)|all_epithelial(112;4.26e-15)|Lung NSC(122;1.12e-10)|all_lung(180;2.59e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;4.99e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0861)|COAD - Colon adenocarcinoma(120;0.211)		AGGAAAAGTGGCTCTGTATGG	0.353													12	50					0	0	0.001368	0	0	
INO80	54617	broad.mit.edu	37	15	41276493	41276493	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:41276493T>C	uc001zni.2	-	33	4192	c.3979A>G	c.(3979-3981)ATC>GTC	p.I1327V	INO80_uc010ucu.1_RNA	NM_017553	NP_060023	Q9ULG1	INO80_HUMAN	INO80 complex homolog 1	1327	Assembles INO80 complex module consisting of conserved components INO80B, INO80C, ACTR5, RVBL1, RVBL2.				cell division|cellular response to ionizing radiation|cellular response to UV|chromatin remodeling|double-strand break repair via homologous recombination|mitotic sister chromatid segregation|positive regulation of cell growth|positive regulation of DNA replication involved in S phase|positive regulation of transcription from RNA polymerase II promoter|regulation of G1/S transition of mitotic cell cycle|spindle assembly|UV-damage excision repair	Ino80 complex|microtubule	actin binding|alpha-tubulin binding|ATP binding|ATPase activity|DNA binding|DNA helicase activity			ovary(2)|pancreas(1)|skin(1)	4						ACAAATGGGATCACCAGGTTC	0.478													11	40					0	0	0.001368	0	0	
MGA	23269	broad.mit.edu	37	15	41961288	41961288	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:41961288C>T	uc001zog.1	+	2	287	c.196C>T	c.(196-198)CTT>TTT	p.L66F	MGA_uc010ucy.1_Missense_Mutation_p.L66F|MGA_uc010ucz.1_Missense_Mutation_p.L66F	NM_001080541	NP_001074010	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 2	66						MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)		GAAGATTTGCCTTCCAGCTGA	0.408													32	84					0	0	0.002096	0	0	
MGA	23269	broad.mit.edu	37	15	42035042	42035042	+	Nonsense_Mutation	SNP	T	A	A	rs111793456		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:42035042T>A	uc010ucy.1	+	15	5065	c.4884T>A	c.(4882-4884)TAT>TAA	p.Y1628*	MGA_uc010ucz.1_Intron|MGA_uc010uda.1_Nonsense_Mutation_p.Y244*	NM_001164273	NP_001157745	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 1	1628	Thr-rich.					MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)		AAACTACTTATTCTTCTGGTG	0.443													4	78					0	0	0.009096	0	0	
MAPKBP1	23005	broad.mit.edu	37	15	42105237	42105237	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:42105237T>A	uc001zok.3	+	8	1043	c.757T>A	c.(757-759)TCC>ACC	p.S253T	MAPKBP1_uc001zoj.3_Missense_Mutation_p.S253T|MAPKBP1_uc010bcj.2_5'UTR|MAPKBP1_uc010bci.2_Missense_Mutation_p.S253T|MAPKBP1_uc010udb.1_Missense_Mutation_p.S141T|MAPKBP1_uc010bck.2_5'UTR|MAPKBP1_uc010bcl.2_5'UTR	NM_001128608	NP_001122080	O60336	MABP1_HUMAN	mitogen-activated protein kinase binding protein	253										central_nervous_system(5)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	10		all_cancers(109;7.71e-14)|all_epithelial(112;5.15e-12)|Lung NSC(122;3.74e-08)|all_lung(180;1.81e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.95e-17)|GBM - Glioblastoma multiforme(94;5.71e-07)|Lung(196;0.0436)|BRCA - Breast invasive adenocarcinoma(123;0.203)|LUSC - Lung squamous cell carcinoma(244;0.225)		CTGCATCACGTCCTCAGGGCT	0.582													7	117					0	0	0.004482	0	0	
JMJD7-PLA2G4B	8681	broad.mit.edu	37	15	42132384	42132384	+	Missense_Mutation	SNP	C	T	T	rs149781451	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:42132384C>T	uc010bco.2	+	2	139	c.38C>T	c.(37-39)ACG>ATG	p.T13M	JMJD7-PLA2G4B_uc001zoo.3_Missense_Mutation_p.T244M|JMJD7-PLA2G4B_uc010bcn.2_Missense_Mutation_p.T244M|JMJD7-PLA2G4B_uc001zoq.3_Translation_Start_Site|JMJD7-PLA2G4B_uc001zor.1_5'Flank	NM_001114633	NP_001108105	P0C869	PA24B_HUMAN	phospholipase A2, group IVB	13	C2.				arachidonic acid metabolic process|calcium-mediated signaling|glycerophospholipid catabolic process|inflammatory response|parturition	cytosol|early endosome membrane|extracellular region|mitochondrial membrane	calcium ion binding|calcium-dependent phospholipase A2 activity|calcium-dependent phospholipid binding|lysophospholipase activity			large_intestine(1)	1						TGCCTGCTCACGGTTCGTGTC	0.662													6	21					0	0	0.001984	0	0	
JMJD7-PLA2G4B	8681	broad.mit.edu	37	15	42139574	42139574	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:42139574A>G	uc010bco.2	+	19	2088	c.1987A>G	c.(1987-1989)ATC>GTC	p.I663V	JMJD7-PLA2G4B_uc001zoo.3_Missense_Mutation_p.I894V|JMJD7-PLA2G4B_uc010bcn.2_Intron|JMJD7-PLA2G4B_uc001zoq.3_Missense_Mutation_p.I364V	NM_001114633	NP_001108105	P0C869	PA24B_HUMAN	phospholipase A2, group IVB	663	PLA2c.				arachidonic acid metabolic process|calcium-mediated signaling|glycerophospholipid catabolic process|inflammatory response|parturition	cytosol|early endosome membrane|extracellular region|mitochondrial membrane	calcium ion binding|calcium-dependent phospholipase A2 activity|calcium-dependent phospholipid binding|lysophospholipase activity			large_intestine(1)	1						GGAGCAGGGGATCCCGTTCCC	0.692													4	48					0	0	0.000602	0	0	
PLA2G4F	255189	broad.mit.edu	37	15	42436328	42436328	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:42436328C>T	uc001zoz.2	-	18	2053	c.1990G>A	c.(1990-1992)GCC>ACC	p.A664T	PLA2G4F_uc010bcq.2_Intron|PLA2G4F_uc001zoy.2_Missense_Mutation_p.A296T|PLA2G4F_uc010bcr.2_Missense_Mutation_p.A415T|PLA2G4F_uc001zpa.2_Missense_Mutation_p.A415T|PLA2G4F_uc010bcs.2_Missense_Mutation_p.A451T	NM_213600	NP_998765	Q68DD2	PA24F_HUMAN	phospholipase A2, group IVF	664	PLA2c.				phospholipid catabolic process	cytosol|lysosomal membrane	metal ion binding|phospholipase A2 activity			ovary(4)	4		all_cancers(109;4.82e-12)|all_epithelial(112;5.64e-11)|Lung NSC(122;2.17e-07)|all_lung(180;8.79e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.97e-07)		TTGGGGAAGGCGTCCGGGTGT	0.572													9	38					0	0	0.008291	0	0	
EPB42	2038	broad.mit.edu	37	15	43498659	43498659	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:43498659G>A	uc001zra.3	-	10	1787	c.1487C>T	c.(1486-1488)ACG>ATG	p.T496M	EPB42_uc001zqz.3_Missense_Mutation_p.T163M|EPB42_uc010bde.2_Missense_Mutation_p.T341M|EPB42_uc001zrb.3_Missense_Mutation_p.T526M|EPB42_uc010udm.1_Missense_Mutation_p.T418M	NM_001114134	NP_001107606	P16452	EPB42_HUMAN	erythrocyte membrane protein band 4.2 isoform 2	496					erythrocyte maturation|peptide cross-linking|regulation of cell shape	cytoplasm|cytoskeleton|plasma membrane	ATP binding|protein binding|protein-glutamine gamma-glutamyltransferase activity|structural constituent of cytoskeleton			ovary(2)	2		all_cancers(109;1.37e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;8.7e-07)		ATTAACCAGCGTCACTGAGAT	0.582													5	146					0	0	0.000602	0	0	
TGM5	9333	broad.mit.edu	37	15	43552444	43552444	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:43552444C>T	uc001zrd.1	-	3	250	c.242G>A	c.(241-243)CGC>CAC	p.R81H	TGM5_uc001zre.1_Intron	NM_201631	NP_963925	O43548	TGM5_HUMAN	transglutaminase 5 isoform 1	81					epidermis development|peptide cross-linking	cytoplasm	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			central_nervous_system(1)	1		all_cancers(109;1.37e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.216)		GBM - Glioblastoma multiforme(94;4e-07)	L-Glutamine(DB00130)	GCTGTGATGGCGTGCCAGGCT	0.677													5	20					0	0	0.001168	0	0	
PPIP5K1	9677	broad.mit.edu	37	15	43826900	43826900	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:43826900G>A	uc001zrw.2	-	31	4457	c.4274C>T	c.(4273-4275)GCC>GTC	p.A1425V	PPIP5K1_uc001zrx.1_Missense_Mutation_p.A1398V|PPIP5K1_uc001zru.2_Missense_Mutation_p.A1400V|PPIP5K1_uc001zry.3_Missense_Mutation_p.A1400V|PPIP5K1_uc001zrv.2_Missense_Mutation_p.A1186V	NM_001130858	NP_001124330	Q6PFW1	VIP1_HUMAN	histidine acid phosphatase domain containing 2A	1425					inositol metabolic process	cytosol	acid phosphatase activity|ATP binding|diphosphoinositol-pentakisphosphate kinase activity|inositol 1,3,4,5,6-pentakisphosphate kinase activity|inositol hexakisphosphate 5-kinase activity				0						GACCTCCTGGGCCTGCAGATC	0.522													10	157					0	0	0.006214	0	0	
CATSPER2	117155	broad.mit.edu	37	15	43924939	43924939	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:43924939C>T	uc001zsh.2	-	11	1587	c.1372G>A	c.(1372-1374)GAA>AAA	p.E458K	STRC_uc010udz.1_5'Flank|CATSPER2_uc010bdm.2_Intron|CATSPER2_uc001zsi.2_Missense_Mutation_p.E456K|CATSPER2_uc001zsj.2_Missense_Mutation_p.E456K	NM_172095	NP_742093	Q96P56	CTSR2_HUMAN	sperm-associated cation channel 2 isoform 2	458	Cytoplasmic (Potential).|Ser-rich.				cell differentiation|multicellular organismal development|spermatogenesis	cilium|flagellar membrane|integral to membrane	calcium channel activity|protein binding|voltage-gated ion channel activity			ovary(1)	1		all_cancers(109;3.26e-15)|all_epithelial(112;1.48e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.56e-07)		AATCTGGATTCAgaagaggaa	0.264													22	51					0	0	0.002299	0	0	
WDR76	79968	broad.mit.edu	37	15	44120406	44120406	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:44120406T>A	uc001zti.1	+	2	327	c.304T>A	c.(304-306)TCT>ACT	p.S102T		NM_024908	NP_079184	Q9H967	WDR76_HUMAN	WD repeat domain 76	102											0		all_cancers(109;3.26e-11)|all_epithelial(112;4.82e-09)|Lung NSC(122;1.61e-06)|all_lung(180;1.5e-05)|Melanoma(134;0.0417)		all cancers(107;3.78e-21)|GBM - Glioblastoma multiforme(94;5.04e-07)		GAAAAACACATCTTCCAAGGC	0.393													39	76					0	0	0.006999	0	0	
DUOX2	50506	broad.mit.edu	37	15	45391910	45391910	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:45391910G>A	uc010bea.2	-	25	3568	c.3365C>T	c.(3364-3366)GCC>GTC	p.A1122V	DUOX2_uc001zun.2_Missense_Mutation_p.A1122V	NM_014080	NP_054799	Q9NRD8	DUOX2_HUMAN	dual oxidase 2 precursor	1122	Interaction with TXNDC11 (By similarity).|Cytoplasmic (Potential).|Ferric oxidoreductase.				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|response to virus	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|peroxidase activity			ovary(2)|skin(2)|pancreas(1)	5		all_cancers(109;3.79e-11)|all_epithelial(112;2.92e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;1.05e-18)|GBM - Glioblastoma multiforme(94;4.23e-07)|COAD - Colon adenocarcinoma(120;0.0668)|Colorectal(133;0.068)		GTCCACTGCGGCATCAAAAGG	0.547													19	48					0	0	0.002299	0	0	
SLC30A4	7782	broad.mit.edu	37	15	45777398	45777398	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:45777398T>C	uc001zvj.2	-	8	1565	c.1253A>G	c.(1252-1254)GAC>GGC	p.D418G		NM_013309	NP_037441	O14863	ZNT4_HUMAN	solute carrier family 30 (zinc transporter),	418	Cytoplasmic (Potential).				regulation of sequestering of zinc ion|response to toxin	endosome membrane|integral to membrane|late endosome	zinc ion transmembrane transporter activity				0		Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;1.58e-16)|GBM - Glioblastoma multiforme(94;2.15e-06)		ACAAGTTCTGTCCACTTCTTG	0.378													12	30					0	0	0.001855	0	0	
SEMA6D	80031	broad.mit.edu	37	15	48052028	48052028	+	Silent	SNP	G	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:48052028G>C	uc010bek.2	+	2	393	c.33G>C	c.(31-33)CTG>CTC	p.L11L	SEMA6D_uc001zvw.2_Silent_p.L11L|SEMA6D_uc001zvx.1_Silent_p.L11L|SEMA6D_uc001zvy.2_Silent_p.L11L|SEMA6D_uc001zvz.2_Silent_p.L11L|SEMA6D_uc001zwa.2_Silent_p.L11L|SEMA6D_uc001zwb.2_Silent_p.L11L|SEMA6D_uc001zwc.2_Silent_p.L11L	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	11					axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		CCTACATACTGCTGCTGATGG	0.502													3	51					0	0	0.000602	0	0	
SEMA6D	80031	broad.mit.edu	37	15	48054484	48054484	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:48054484G>A	uc010bek.2	+	8	986	c.626G>A	c.(625-627)CGC>CAC	p.R209H	SEMA6D_uc001zvw.2_Missense_Mutation_p.R209H|SEMA6D_uc001zvx.1_Missense_Mutation_p.R209H|SEMA6D_uc001zvy.2_Missense_Mutation_p.R209H|SEMA6D_uc001zvz.2_Missense_Mutation_p.R209H|SEMA6D_uc001zwa.2_Missense_Mutation_p.R209H|SEMA6D_uc001zwb.2_Missense_Mutation_p.R209H|SEMA6D_uc001zwc.2_Missense_Mutation_p.R209H	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	209	Sema.|Extracellular (Potential).				axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		TCTGCCCTTCGCACAATAAAA	0.498													5	64					0	0	0.000602	0	0	
SLC12A1	6557	broad.mit.edu	37	15	48518712	48518712	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:48518712C>A	uc001zwn.3	+	5	884	c.668C>A	c.(667-669)ACT>AAT	p.T223N	SLC12A1_uc010uew.1_Missense_Mutation_p.T29N|SLC12A1_uc010bem.2_Intron|SLC12A1_uc010uex.1_Missense_Mutation_p.T223N|SLC12A1_uc001zwq.3_5'UTR|SLC12A1_uc001zwr.3_5'UTR	NM_000338	NP_000329	Q13621	S12A1_HUMAN	sodium potassium chloride cotransporter 2	223	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport	integral to membrane|membrane fraction	sodium:potassium:chloride symporter activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;0.00219)		all cancers(107;1.76e-09)|GBM - Glioblastoma multiforme(94;1.48e-06)	Bumetanide(DB00887)|Chlormerodrin(DB00534)|Chlorthalidone(DB00310)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Metolazone(DB00524)|Potassium Chloride(DB00761)|Torasemide(DB00214)|Trichlormethiazide(DB01021)	ACCATGGTAACTTCTATTACT	0.393													17	46					5.35267e-07	5.69518e-07	0.007413	1	0	
FBN1	2200	broad.mit.edu	37	15	48791196	48791196	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:48791196G>A	uc001zwx.1	-	18	2481	c.2153C>T	c.(2152-2154)ACG>ATG	p.T718M		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	718					heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		GCCTGCTGACGTCATTCCTGG	0.458													11	148					0	0	0.008291	0	0	
FBN1	2200	broad.mit.edu	37	15	48936939	48936939	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:48936939C>T	uc001zwx.1	-	2	356	c.28G>A	c.(28-30)GCC>ACC	p.A10T		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	10					heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		AATCCCAGGGCGATCTCCAGC	0.687													9	25					0	0	0.004482	0	0	
SECISBP2L	9728	broad.mit.edu	37	15	49304895	49304895	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:49304895C>T	uc001zxe.1	-	12	1815	c.1681G>A	c.(1681-1683)GGA>AGA	p.G561R	SECISBP2L_uc001zxd.1_Missense_Mutation_p.G516R|SECISBP2L_uc010bep.1_Missense_Mutation_p.G323R	NM_014701	NP_055516	Q93073	SBP2L_HUMAN	SECIS binding protein 2-like	561										breast(1)|skin(1)	2						TTCTCTTTTCCTTTTTTTGCT	0.333													32	95					0	0	0.004878	0	0	
C15orf33	196951	broad.mit.edu	37	15	49903459	49903459	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:49903459G>A	uc001zxl.2	-	3	352	c.58C>T	c.(58-60)CAA>TAA	p.Q20*	C15orf33_uc001zxm.2_Nonsense_Mutation_p.Q20*	NM_152647	NP_689860	Q96M60	CO033_HUMAN	hypothetical protein LOC196951	20										ovary(1)	1		all_lung(180;0.00187)		all cancers(107;3.45e-08)|GBM - Glioblastoma multiforme(94;0.000124)		GGAGGTTCTTGCATTTTCTAA	0.259													13	35					0	0	0.002450	0	0	
DTWD1	56986	broad.mit.edu	37	15	49924402	49924402	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:49924402G>A	uc001zxq.2	+	4	588	c.311G>A	c.(310-312)GGC>GAC	p.G104D	DTWD1_uc001zxs.2_Missense_Mutation_p.G104D|DTWD1_uc001zxr.2_Missense_Mutation_p.G17D|DTWD1_uc001zxo.2_Missense_Mutation_p.G104D	NM_020234	NP_064619	Q8N5C7	DTWD1_HUMAN	DTW domain containing 1	104											0		all_lung(180;0.0384)		all cancers(107;3.27e-08)|GBM - Glioblastoma multiforme(94;7.6e-05)		gaaaCAGATGGCAAAAGTACT	0.194													9	49					0	0	0.006214	0	0	
SLC27A2	11001	broad.mit.edu	37	15	50494717	50494717	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:50494717G>A	uc001zxw.2	+	3	954	c.722G>A	c.(721-723)CGC>CAC	p.R241H	SLC27A2_uc010bes.2_Intron|SLC27A2_uc001zxx.2_Missense_Mutation_p.R6H	NM_003645	NP_003636	O14975	S27A2_HUMAN	solute carrier family 27 (fatty acid	241	Lumenal (Potential).				bile acid biosynthetic process|fatty acid alpha-oxidation	endoplasmic reticulum membrane|integral to membrane|peroxisomal matrix|peroxisomal membrane	ATP binding|long-chain fatty acid-CoA ligase activity|phytanate-CoA ligase activity|pristanate-CoA ligase activity			ovary(1)|skin(1)	2		all_lung(180;0.00177)		all cancers(107;1.16e-06)|GBM - Glioblastoma multiforme(94;0.000113)		ACTCATCAGCGCATATGGTAT	0.428													27	60					0	0	0.003271	0	0	
SCG3	29106	broad.mit.edu	37	15	51975601	51975601	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:51975601A>G	uc002abh.2	+	4	775	c.367A>G	c.(367-369)ACT>GCT	p.T123A	SCG3_uc010ufz.1_5'UTR	NM_013243	NP_037375	Q8WXD2	SCG3_HUMAN	secretogranin III isoform 1 precursor	123					platelet activation|platelet degranulation	extracellular region|stored secretory granule				ovary(1)	1				all cancers(107;0.00488)		TTATGACTCTACTAAGAGTGG	0.328													6	135					0	0	0.001984	0	0	
MAPK6	5597	broad.mit.edu	37	15	52356133	52356133	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:52356133C>T	uc002abp.2	+	6	1896	c.1102C>T	c.(1102-1104)CCT>TCT	p.P368S		NM_002748	NP_002739	Q16659	MK06_HUMAN	mitogen-activated protein kinase 6	368					cell cycle		ATP binding|MAP kinase activity			lung(3)|ovary(1)	4				all cancers(107;0.0028)		GCATGATTGGCCTGTACATAA	0.323													7	78					0	0	0.001984	0	0	
BCL2L10	10017	broad.mit.edu	37	15	52402115	52402115	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:52402115T>C	uc002abq.2	-	2	594	c.545A>G	c.(544-546)CAG>CGG	p.Q182R		NM_020396	NP_065129	Q9HD36	B2L10_HUMAN	BCL2-like 10 (apoptosis facilitator)	172					activation of caspase activity|anti-apoptosis|female gamete generation|spermatogenesis	cytosol|integral to membrane|membrane fraction|mitochondrion|nuclear membrane	protein binding				0				all cancers(107;0.0148)		CTGGACCAGCTGTTTTCTCCA	0.438													8	131					0	0	0.000978	0	0	
MYO5C	55930	broad.mit.edu	37	15	52497304	52497304	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:52497304G>A	uc010bff.2	-	38	4715	c.4578C>T	c.(4576-4578)TCC>TCT	p.S1526S	MYO5C_uc010uga.1_RNA|uc002abv.2_RNA	NM_018728	NP_061198	Q9NQX4	MYO5C_HUMAN	myosin VC	1526	Dilute.					myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(7)|central_nervous_system(3)|large_intestine(2)|skin(2)	14				all cancers(107;0.0137)		GCTTCAGGCCGGAAATGCCCT	0.597													12	44					0	0	0.007413	0	0	
MYO5C	55930	broad.mit.edu	37	15	52571811	52571811	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:52571811C>T	uc010bff.2	-	3	336	c.199G>A	c.(199-201)GTG>ATG	p.V67M	MYO5C_uc010uga.1_RNA|MYO5C_uc010ugb.1_RNA|MYO5C_uc010ugc.1_Missense_Mutation_p.V30M|MIR1266_hsa-mir-1266|MI0006403_5'Flank	NM_018728	NP_061198	Q9NQX4	MYO5C_HUMAN	myosin VC	67	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(7)|central_nervous_system(3)|large_intestine(2)|skin(2)	14				all cancers(107;0.0137)		TTCTCGCCCACGAGGATGTCA	0.468													16	28					0	0	0.008871	0	0	
DYX1C1	161582	broad.mit.edu	37	15	55724799	55724799	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:55724799G>A	uc002adc.2	-	9	1417	c.1049C>T	c.(1048-1050)GCA>GTA	p.A350V	CCPG1_uc002acy.2_5'UTR|DYX1C1_uc010ugh.1_Intron|DYX1C1_uc010ugi.1_RNA|DYX1C1_uc002adb.2_Intron|DYX1C1_uc002add.2_Intron	NM_130810	NP_570722	Q8WXU2	DYXC1_HUMAN	dyslexia susceptibility 1 candidate 1 isoform a	350	TPR 2.				neuron migration|regulation of estrogen receptor signaling pathway|regulation of proteasomal protein catabolic process	cytoplasm|nucleus	estrogen receptor binding			skin(1)	1				all cancers(107;0.0118)|GBM - Glioblastoma multiforme(80;0.171)		TAATTCCAGTGCCTTACAAAA	0.259													14	37					0	0	0.002450	0	0	
RFX7	64864	broad.mit.edu	37	15	56386815	56386815	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:56386815G>A	uc010bfn.2	-	9	3111	c.3111C>T	c.(3109-3111)GAC>GAT	p.D1037D	RFX7_uc010ugk.1_RNA|RFX7_uc002adn.1_Silent_p.D851D	NM_022841	NP_073752	Q2KHR2	RFX7_HUMAN	regulatory factor X domain containing 2	940					regulation of transcription, DNA-dependent	nucleus	DNA binding				0						CAATGCTGGCGTCATGATATG	0.483													32	58					0	0	0.002096	0	0	
GCOM1	145781	broad.mit.edu	37	15	57913876	57913876	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:57913876G>A	uc002aei.2	+	4	508	c.389G>A	c.(388-390)CGA>CAA	p.R130Q	GCOM1_uc002aej.2_Missense_Mutation_p.R130Q|GCOM1_uc002aek.2_Intron|GCOM1_uc002ael.2_Intron|GCOM1_uc002aem.2_Missense_Mutation_p.R130Q|GCOM1_uc002aeq.2_RNA|GCOM1_uc002aen.2_RNA|GCOM1_uc010bfy.2_RNA|GCOM1_uc002aeo.2_Missense_Mutation_p.R130Q|GCOM1_uc002aep.2_RNA|GCOM1_uc010bfx.2_RNA	NM_001018100	NP_001018110	P0CAP1	GCOM1_HUMAN	GRINL1A upstream protein isoform 7	130	Potential.				intracellular signal transduction	extrinsic to internal side of plasma membrane|I band				ovary(1)	1						CAGAAGATTCGACAGCTCACC	0.468													29	88					0	0	0.002445	0	0	
GCOM1	145781	broad.mit.edu	37	15	57929897	57929897	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:57929897G>A	uc002aei.2	+	9	1057	c.938G>A	c.(937-939)CGT>CAT	p.R313H	GCOM1_uc002aej.2_Missense_Mutation_p.R313H|GCOM1_uc002aek.2_RNA|GCOM1_uc002ael.2_RNA|GCOM1_uc002aem.2_Missense_Mutation_p.R313H|GCOM1_uc002aeq.2_RNA|GCOM1_uc002aen.2_RNA|GCOM1_uc010bfy.2_RNA|GCOM1_uc002aeo.2_Missense_Mutation_p.R313H|GCOM1_uc002aep.2_RNA|GCOM1_uc010bfx.2_RNA	NM_001018100	NP_001018110	P0CAP1	GCOM1_HUMAN	GRINL1A upstream protein isoform 7	313	Potential.				intracellular signal transduction	extrinsic to internal side of plasma membrane|I band				ovary(1)	1						TTTTAGGAACGTCATCAACTG	0.383													5	33					0	0	0.001168	0	0	
ALDH1A2	8854	broad.mit.edu	37	15	58357819	58357819	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:58357819G>A	uc002aex.2	-	1	88	c.30C>T	c.(28-30)GGC>GGT	p.G10G	ALDH1A2_uc002aey.2_Silent_p.G10G|ALDH1A2_uc010ugv.1_5'UTR|ALDH1A2_uc010ugw.1_Intron	NM_003888	NP_003879	O94788	AL1A2_HUMAN	aldehyde dehydrogenase 1A2 isoform 1	10					negative regulation of cell proliferation|neural tube development|response to cytokine stimulus	nucleus	3-chloroallyl aldehyde dehydrogenase activity|retinal binding|retinal dehydrogenase activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(80;0.152)|all cancers(107;0.18)	NADH(DB00157)|Tretinoin(DB00755)|Vitamin A(DB00162)	CCTTCACCTCGCCGGGCATCT	0.607													4	4					0	0	0.009096	0	0	
RNF111	54778	broad.mit.edu	37	15	59323599	59323599	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:59323599C>T	uc002afv.2	+	2	857	c.578C>T	c.(577-579)TCG>TTG	p.S193L	RNF111_uc002afs.2_Missense_Mutation_p.S193L|RNF111_uc002aft.2_Missense_Mutation_p.S193L|RNF111_uc002afu.2_Missense_Mutation_p.S193L|RNF111_uc002afw.2_Missense_Mutation_p.S193L	NM_017610	NP_060080	Q6ZNA4	RN111_HUMAN	ring finger protein 111	193					multicellular organismal development|positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2				all cancers(107;0.194)		GAATCTGTATCGGGATTGTTA	0.423													38	95					0	0	0.007835	0	0	
LDHAL6B	92483	broad.mit.edu	37	15	59499582	59499582	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:59499582G>A	uc002agb.2	+	1	541	c.443G>A	c.(442-444)CGC>CAC	p.R148H	MYO1E_uc002aga.2_Intron	NM_033195	NP_149972	Q9BYZ2	LDH6B_HUMAN	lactate dehydrogenase A-like 6B	148		NAD (By similarity).			glycolysis	cytoplasm	L-lactate dehydrogenase activity|protein binding				0					NADH(DB00157)	GCAGGTGCACGCCAAGAAAAG	0.438													38	124					0	0	0.006230	0	0	
TLN2	83660	broad.mit.edu	37	15	63009877	63009877	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:63009877C>T	uc002alb.3	+	21	2866	c.2866C>T	c.(2866-2868)CAG>TAG	p.Q956*		NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	956	Ala-rich.				cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						GCAGCTGGTCCAGAGTTGCAA	0.577													6	9					0	0	0.001984	0	0	
TLN2	83660	broad.mit.edu	37	15	63019352	63019352	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:63019352C>T	uc002alb.3	+	25	3322	c.3322C>T	c.(3322-3324)CTG>TTG	p.L1108L		NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	1108	Ala-rich.				cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						GGCACAGCTGCTGACCTGTGC	0.562													12	35					0	0	0.001368	0	0	
TLN2	83660	broad.mit.edu	37	15	63092928	63092928	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:63092928C>T	uc002alb.3	+	47	6437	c.6437C>T	c.(6436-6438)GCG>GTG	p.A2146V	TLN2_uc002alc.3_Missense_Mutation_p.A539V	NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	2146					cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						GGCACCAGGGCGCTTGAGGCC	0.507													4	12					0	0	0.001168	0	0	
HERC1	8925	broad.mit.edu	37	15	63943555	63943555	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:63943555C>T	uc002amp.2	-	53	10591	c.10443G>A	c.(10441-10443)CTG>CTA	p.L3481L		NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	3481					protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						TGGGTGATCCCAGGCTTTCCT	0.408													29	78					0	0	0.002445	0	0	
TRIP4	9325	broad.mit.edu	37	15	64701939	64701939	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:64701939G>A	uc002anm.2	+	7	998	c.955G>A	c.(955-957)GCC>ACC	p.A319T		NM_016213	NP_057297	Q15650	TRIP4_HUMAN	thyroid hormone receptor interactor 4	319					positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	ligand-dependent nuclear receptor binding|transcription coactivator activity|zinc ion binding			ovary(1)|kidney(1)|skin(1)	3						ACTTCGACACGCCTCTCGACT	0.463													7	142					0	0	0.003080	0	0	
ZNF609	23060	broad.mit.edu	37	15	64966631	64966631	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:64966631G>A	uc002ann.2	+	4	1578	c.1578G>A	c.(1576-1578)AAG>AAA	p.K526K		NM_015042	NP_055857	O15014	ZN609_HUMAN	zinc finger protein 609	526						nucleus	zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						ATGACAGCAAGCCGGAAGCGG	0.493													4	80					0	0	0.009096	0	0	
PIF1	80119	broad.mit.edu	37	15	65114700	65114700	+	Missense_Mutation	SNP	C	T	T	rs139868280	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:65114700C>T	uc002ant.2	-	3	734	c.668G>A	c.(667-669)AGC>AAC	p.S223N	PIF1_uc002anr.2_5'Flank|PIF1_uc002ans.2_5'Flank|PIF1_uc010uiq.1_Missense_Mutation_p.S223N|PIF1_uc002anu.2_Missense_Mutation_p.S223N	NM_025049	NP_079325	Q9H611	PIF1_HUMAN	DNA helicase homolog PIF1	223	Hydrolyzes ATP in the presence of both magnesium and single-stranded DNA; weak activity in the presence of RNA or double-stranded DNA; No unwinding activity.				negative regulation of telomerase activity|regulation of telomere maintenance|viral genome replication	nuclear chromosome, telomeric region	ATP binding|ATP-dependent 5'-3' DNA helicase activity|ATP-dependent 5'-3' DNA/RNA helicase activity|magnesium ion binding|single-stranded DNA-dependent ATP-dependent DNA helicase activity|telomeric DNA binding				0						GAAGAAGATGCTCTGGCCTTT	0.602													7	29					0	0	0.003080	0	0	
DPP8	54878	broad.mit.edu	37	15	65790263	65790263	+	Silent	SNP	G	A	A	rs147893429		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:65790263G>A	uc002aov.2	-	5	2280	c.702C>T	c.(700-702)AAC>AAT	p.N234N	DPP8_uc002aow.2_Silent_p.N234N|DPP8_uc010uiv.1_RNA|DPP8_uc002aox.2_Silent_p.N218N|DPP8_uc002aoy.2_Silent_p.N234N|DPP8_uc002aoz.2_Silent_p.N218N|DPP8_uc010bhj.2_Silent_p.N234N|DPP8_uc002apa.2_Silent_p.N131N	NM_130434	NP_569118	Q6V1X1	DPP8_HUMAN	dipeptidyl peptidase 8 isoform 1	234					immune response|proteolysis	cytoplasm|membrane|nucleus	aminopeptidase activity|dipeptidyl-peptidase activity|serine-type peptidase activity			ovary(1)	1						TCCAAATATCGTTGCTATGTA	0.398													24	69					0	0	0.005443	0	0	
C15orf44	81556	broad.mit.edu	37	15	65892135	65892135	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:65892135T>C	uc002apd.2	-	4	799	c.463A>G	c.(463-465)ATG>GTG	p.M155V	C15orf44_uc010uix.1_Missense_Mutation_p.M191V|C15orf44_uc010uiz.1_Missense_Mutation_p.M119V|C15orf44_uc010uja.1_Missense_Mutation_p.M106V|C15orf44_uc010ujb.1_Missense_Mutation_p.M76V|C15orf44_uc002ape.3_Missense_Mutation_p.M155V|C15orf44_uc010uiy.1_Missense_Mutation_p.M76V|C15orf44_uc010ujc.1_Missense_Mutation_p.M155V	NM_030800	NP_110427	Q96SY0	CO044_HUMAN	hypothetical protein LOC81556 isoform 2	155	VWFA.									ovary(1)	1						GCCATGCACATGATATATAAC	0.383													31	63					0	0	0.002445	0	0	
RAB11A	8766	broad.mit.edu	37	15	66180171	66180171	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:66180171A>G	uc002apk.2	+	5	772	c.644A>G	c.(643-645)AAC>AGC	p.N215S	RAB11A_uc010ujk.1_3'UTR	NM_004663	NP_004654	P62491	RB11A_HUMAN	Ras-related protein Rab-11A	215					cell cycle|cytokinesis|neuron projection development|plasma membrane to endosome transport|protein localization in plasma membrane|small GTPase mediated signal transduction|vesicle-mediated transport	cleavage furrow|plasma membrane|recycling endosome membrane|trans-Golgi network	GTP binding|GTPase activity|syntaxin binding				0						TGCTGTCAGAACATCTAAGGC	0.413													5	105					0	0	0.001168	0	0	
MEGF11	84465	broad.mit.edu	37	15	66416298	66416298	+	Missense_Mutation	SNP	C	T	T	rs142845610	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:66416298C>T	uc002apm.2	-	3	280	c.139G>A	c.(139-141)GAT>AAT	p.D47N	MEGF11_uc002apl.2_Silent_p.S5S|MEGF11_uc002apn.1_Missense_Mutation_p.D47N	NM_032445	NP_115821	A6BM72	MEG11_HUMAN	multiple EGF-like-domains 11 precursor	47	EMI.					basolateral plasma membrane|integral to membrane				pancreas(1)	1						TAGATCTGATCGAAGGGGTGT	0.507													19	62					0	0	0.008871	0	0	
ZWILCH	55055	broad.mit.edu	37	15	66813467	66813467	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:66813467C>T	uc002aqb.2	+	7	917	c.671C>T	c.(670-672)GCG>GTG	p.A224V	RPL4_uc002apx.2_Intron|ZWILCH_uc010bhu.1_Missense_Mutation_p.A110V|ZWILCH_uc002aqa.2_Missense_Mutation_p.A110V|ZWILCH_uc010bhv.2_Missense_Mutation_p.A110V	NM_017975	NP_060445	Q9H900	ZWILC_HUMAN	Zwilch	224					cell division|mitotic cell cycle checkpoint|mitotic prometaphase	condensed chromosome kinetochore|cytosol	protein binding			ovary(1)	1						TCACAAACTGCGATCGCTTTG	0.458													16	367					0	0	0.008871	0	0	
LCTL	197021	broad.mit.edu	37	15	66844070	66844070	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:66844070C>T	uc002aqc.2	-	11	1586	c.1454G>A	c.(1453-1455)CGC>CAC	p.R485H	LCTL_uc002aqd.3_Missense_Mutation_p.R312H|LCTL_uc010bhw.2_Intron	NM_207338	NP_997221	Q6UWM7	LCTL_HUMAN	lactase-like precursor	485	Extracellular (Potential).				carbohydrate metabolic process	endoplasmic reticulum membrane|integral to membrane	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(2)	2						CTTTGGATAGCGAGGCTTATT	0.373													29	94					0	0	0.008361	0	0	
CLN6	54982	broad.mit.edu	37	15	68500592	68500592	+	Silent	SNP	C	T	T	rs151186473	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:68500592C>T	uc002arf.2	-	7	980	c.822G>A	c.(820-822)GCG>GCA	p.A274A	CALML4_uc002arb.2_5'Flank|CALML4_uc002arc.2_5'Flank|CALML4_uc002ard.2_5'Flank|CALML4_uc002are.2_5'Flank|CALML4_uc010bhz.2_5'Flank|CLN6_uc010ujy.1_Silent_p.A145A|CLN6_uc010ujz.1_Silent_p.A306A	NM_017882	NP_060352	Q9NWW5	CLN6_HUMAN	CLN6 protein	274	Helical; (Potential).				cell death|cholesterol metabolic process|ganglioside metabolic process|glycosaminoglycan metabolic process|lysosomal lumen acidification|positive regulation of proteolysis|protein catabolic process	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane	protein homodimerization activity				0						CGACCCAGAGCGCCACAAGCA	0.602													19	48					0	0	0.001882	0	0	
KIF23	9493	broad.mit.edu	37	15	69728955	69728955	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:69728955C>T	uc002asb.2	+	14	1566	c.1449C>T	c.(1447-1449)TGC>TGT	p.C483C	KIF23_uc002asc.2_Silent_p.C483C|KIF23_uc010bii.2_Silent_p.C373C|KIF23_uc010ukc.1_Silent_p.C300C	NM_138555	NP_612565	Q02241	KIF23_HUMAN	kinesin family member 23 isoform 1	483					blood coagulation|cytokinesis|microtubule-based movement|mitosis|mitotic spindle elongation	cytosol|kinesin complex|microtubule|midbody|nucleoplasm|spindle	ATP binding|microtubule motor activity|protein binding				0						TGCCATCATGCGAAATTTTGG	0.363													15	51					0	0	0.006122	0	0	
TLE3	7090	broad.mit.edu	37	15	70346947	70346947	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:70346947C>T	uc002asm.2	-	16	2784	c.1665G>A	c.(1663-1665)ACG>ACA	p.T555T	TLE3_uc002ask.2_Silent_p.T482T|TLE3_uc002asl.2_Silent_p.T555T|TLE3_uc010ukd.1_Silent_p.T545T|TLE3_uc010bik.1_Silent_p.T136T|TLE3_uc010bil.1_Silent_p.T552T|TLE3_uc002asn.2_Silent_p.T543T|TLE3_uc002asp.2_Silent_p.T547T|TLE3_uc002aso.2_Silent_p.T550T	NM_005078	NP_005069	Q04726	TLE3_HUMAN	transducin-like enhancer protein 3 isoform a	555	WD 2.				organ morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|protein binding			lung(2)	2						AGATGGTGAGCGTGCTGGCCT	0.667													4	17					0	0	0.000602	0	0	
LRRC49	54839	broad.mit.edu	37	15	71305222	71305222	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:71305222A>G	uc002asw.2	+	14	1920	c.1673A>G	c.(1672-1674)TAT>TGT	p.Y558C	LRRC49_uc002asu.2_Missense_Mutation_p.Y548C|LRRC49_uc002asx.2_Missense_Mutation_p.Y514C|LRRC49_uc010ukf.1_Missense_Mutation_p.Y563C|LRRC49_uc002asy.2_Missense_Mutation_p.Y264C|LRRC49_uc002asz.2_Missense_Mutation_p.Y530C	NM_017691	NP_060161	Q8IUZ0	LRC49_HUMAN	leucine rich repeat containing 49	558						cytoplasm|microtubule				ovary(1)	1						TTACCCCAGTATCGTCTGATT	0.363													4	88					0	0	0.000602	0	0	
THSD4	79875	broad.mit.edu	37	15	71549040	71549040	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:71549040A>G	uc002atb.1	+	5	1080	c.1001A>G	c.(1000-1002)GAA>GGA	p.E334G	THSD4_uc002atd.1_Missense_Mutation_p.E8G	NM_024817	NP_079093	Q6ZMP0	THSD4_HUMAN	thrombospondin, type I, domain containing 4	334						proteinaceous extracellular matrix	metalloendopeptidase activity			ovary(2)	2						TATGAGTGGGAACCATTTGCA	0.433													28	80					0	0	0.009535	0	0	
MYO9A	4649	broad.mit.edu	37	15	72119009	72119009	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:72119009A>G	uc002atl.3	-	42	8032	c.7559T>C	c.(7558-7560)GTC>GCC	p.V2520A	MYO9A_uc002atj.2_Missense_Mutation_p.V451A|MYO9A_uc002atk.2_Missense_Mutation_p.V1315A	NM_006901	NP_008832	B2RTY4	MYO9A_HUMAN	myosin IXA	2520					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|visual perception	cytosol|integral to membrane|unconventional myosin complex	actin binding|ATP binding|GTPase activator activity|metal ion binding|motor activity			ovary(1)|pancreas(1)|skin(1)	3						GCCAGACATGACTGTCCCCTC	0.458													5	109					0	0	0.001168	0	0	
PARP6	56965	broad.mit.edu	37	15	72549731	72549731	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:72549731G>A	uc002auc.2	-	12	1416	c.957C>T	c.(955-957)GGC>GGT	p.G319G	PARP6_uc002aua.2_Silent_p.G164G|PARP6_uc002aub.2_RNA|PARP6_uc002aud.3_RNA|PARP6_uc002auf.1_Silent_p.G319G	NM_020214	NP_064599	Q2NL67	PARP6_HUMAN	poly (ADP-ribose) polymerase family, member 6	319							NAD+ ADP-ribosyltransferase activity				0						CAGACATGACGCCCAGTGTGT	0.507													7	96					0	0	0.008291	0	0	
TMEM202	338949	broad.mit.edu	37	15	72691176	72691176	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:72691176C>T	uc002auq.2	+	2	264	c.264C>T	c.(262-264)GGC>GGT	p.G88G	TMEM202_uc002aur.2_Intron	NM_001080462	NP_001073931	A6NGA9	TM202_HUMAN	transmembrane protein 202	88						integral to membrane				central_nervous_system(1)|skin(1)	2						TCAAGAATGGCCTTGAGCTCT	0.532													20	62					0	0	0.001882	0	0	
NEO1	4756	broad.mit.edu	37	15	73528822	73528822	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:73528822T>C	uc002avm.3	+	8	1568	c.1426T>C	c.(1426-1428)TTC>CTC	p.F476L	NEO1_uc010ukx.1_Missense_Mutation_p.F476L|NEO1_uc010uky.1_Missense_Mutation_p.F476L|NEO1_uc010ukz.1_5'UTR|NEO1_uc002avn.3_Missense_Mutation_p.F141L	NM_002499	NP_002490	Q92859	NEO1_HUMAN	neogenin homolog 1 precursor	476	Extracellular (Potential).|Fibronectin type-III 1.				axon guidance|cell adhesion|positive regulation of muscle cell differentiation	Golgi apparatus|integral to plasma membrane|nucleus				pancreas(1)	1						CTACTCTGTGTTCTACACCAA	0.557													5	112					0	0	0.000602	0	0	
NEO1	4756	broad.mit.edu	37	15	73542042	73542042	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:73542042C>T	uc002avm.3	+	11	2016	c.1874C>T	c.(1873-1875)GCT>GTT	p.A625V	NEO1_uc010ukx.1_Missense_Mutation_p.A625V|NEO1_uc010uky.1_Missense_Mutation_p.A625V|NEO1_uc010ukz.1_Missense_Mutation_p.A49V|NEO1_uc002avn.3_Missense_Mutation_p.A290V	NM_002499	NP_002490	Q92859	NEO1_HUMAN	neogenin homolog 1 precursor	625	Extracellular (Potential).|Fibronectin type-III 2.				axon guidance|cell adhesion|positive regulation of muscle cell differentiation	Golgi apparatus|integral to plasma membrane|nucleus				pancreas(1)	1						CCAGATGTTGCTGTTCGAACA	0.363													37	103					0	0	0.006230	0	0	
ISLR2	57611	broad.mit.edu	37	15	74426148	74426148	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:74426148C>T	uc002axd.2	+	4	1822	c.1053C>T	c.(1051-1053)GGC>GGT	p.G351G	ISLR2_uc002axe.2_Silent_p.G351G|ISLR2_uc010bjg.2_Silent_p.G351G|ISLR2_uc010bjf.2_Silent_p.G351G	NM_001130136	NP_001123608	Q6UXK2	ISLR2_HUMAN	immunoglobulin superfamily containing	351	Ig-like.|Extracellular (Potential).				positive regulation of axon extension	cell surface|integral to membrane|plasma membrane					0						AGGAGGCGGGCGTCTACACTT	0.687													3	6					0	0	0.004672	0	0	
CLK3	1198	broad.mit.edu	37	15	74919715	74919715	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:74919715C>T	uc010uln.1	+	8	1745	c.1284C>T	c.(1282-1284)ACC>ACT	p.T428T	CLK3_uc002ayg.3_Silent_p.T280T|CLK3_uc002ayh.3_Silent_p.T59T|CLK3_uc002ayj.3_Silent_p.T257T|CLK3_uc002ayk.3_Silent_p.T207T|CLK3_uc002ayl.3_Silent_p.T113T	NM_001130028	NP_001123500	P49761	CLK3_HUMAN	CDC-like kinase 3 isoform a	428	Protein kinase.					acrosomal vesicle|nucleus	ATP binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(2)	2						ATCAGCTGACCCATACAGACT	0.507													42	206					0	0	0.003610	0	0	
SCAMP5	192683	broad.mit.edu	37	15	75311250	75311250	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:75311250G>A	uc002azk.1	+	7	796	c.634G>A	c.(634-636)GCC>ACC	p.A212T	SCAMP5_uc002azl.1_Missense_Mutation_p.A212T|SCAMP5_uc002azm.1_Missense_Mutation_p.A212T|SCAMP5_uc002azn.1_Missense_Mutation_p.A220T|SCAMP5_uc010uly.1_Missense_Mutation_p.A141T	NM_138967	NP_620417	Q8TAC9	SCAM5_HUMAN	secretory carrier membrane protein 5	212	Cytoplasmic (Potential).				exocytosis|negative regulation of endocytosis|positive regulation of calcium ion-dependent exocytosis|positive regulation of cytokine secretion|protein transport|response to endoplasmic reticulum stress	cell junction|integral to membrane|recycling endosome membrane|synaptic vesicle membrane|trans-Golgi network membrane	protein binding			ovary(1)	1						CATGGGGGCAGCCCAGGGTGC	0.587													15	26					0	0	0.003163	0	0	
C15orf39	56905	broad.mit.edu	37	15	75499456	75499456	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:75499456G>A	uc002azp.3	+	2	1387	c.1067G>A	c.(1066-1068)GGC>GAC	p.G356D	C15orf39_uc002azq.3_Missense_Mutation_p.G356D|C15orf39_uc002azr.3_5'Flank	NM_015492	NP_056307	Q6ZRI6	CO039_HUMAN	hypothetical protein LOC56905	356											0						CCCTCTCCAGGCCTCAAGCTG	0.627													9	81					0	0	0.006214	0	0	
SIN3A	25942	broad.mit.edu	37	15	75664419	75664419	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:75664419G>A	uc002bai.2	-	21	3982	c.3723C>T	c.(3721-3723)GGC>GGT	p.G1241G	SIN3A_uc002baj.2_Silent_p.G1241G|SIN3A_uc010uml.1_Silent_p.G1241G	NM_015477	NP_056292	Q96ST3	SIN3A_HUMAN	transcriptional co-repressor Sin3A	1241					blood coagulation|cellular lipid metabolic process|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|Sin3 complex	protein binding			skin(3)|ovary(1)|lung(1)	5						AGGGCACCAGGCCCTCCAGCC	0.527													5	78					0	0	0.000602	0	0	
SIN3A	25942	broad.mit.edu	37	15	75692389	75692389	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:75692389G>A	uc002bai.2	-	12	2105	c.1846C>T	c.(1846-1848)CGC>TGC	p.R616C	SIN3A_uc002baj.2_Missense_Mutation_p.R616C|SIN3A_uc010uml.1_Missense_Mutation_p.R616C	NM_015477	NP_056292	Q96ST3	SIN3A_HUMAN	transcriptional co-repressor Sin3A	616	Interactions with SUDS3 and SAP130.|Interaction with NCOR1 (By similarity).				blood coagulation|cellular lipid metabolic process|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|Sin3 complex	protein binding			skin(3)|ovary(1)|lung(1)	5						ACCTCAAAGCGTTCATCTTCA	0.433													46	99					0	0	0.002852	0	0	
SNX33	257364	broad.mit.edu	37	15	75949483	75949483	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:75949483G>A	uc002bau.2	+	2	1748	c.1652G>A	c.(1651-1653)CGC>CAC	p.R551H	SNX33_uc002bav.2_Missense_Mutation_p.R164H	NM_153271	NP_695003	Q8WV41	SNX33_HUMAN	sorting nexin 33	551	BAR.				cell communication		phosphatidylinositol binding|protein binding			ovary(1)	1						AACTACTTGCGCCAGCAGATC	0.627													18	43					0	0	0.002299	0	0	
CSPG4	1464	broad.mit.edu	37	15	75968093	75968093	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:75968093T>C	uc002baw.2	-	10	6860	c.6767A>G	c.(6766-6768)GAC>GGC	p.D2256G		NM_001897	NP_001888	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4 precursor	2256	Cytoplasmic (Potential).				angiogenesis|cell differentiation|intracellular signal transduction|positive regulation of peptidyl-tyrosine phosphorylation|tissue remodeling	apical plasma membrane|cell surface|integral to plasma membrane|intracellular|lamellipodium membrane	protein kinase binding|signal transducer activity			ovary(2)|pancreas(1)	3						GACCTGGACGTCATGCTTGCC	0.617													6	28					0	0	0.001984	0	0	
CSPG4	1464	broad.mit.edu	37	15	75968836	75968836	+	Silent	SNP	G	A	A	rs150399169		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:75968836G>A	uc002baw.2	-	10	6117	c.6024C>T	c.(6022-6024)GGC>GGT	p.G2008G		NM_001897	NP_001888	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4 precursor	2008	Extracellular (Potential).|CSPG 14.|Cysteine-containing.|Neurite growth inhibition (By similarity).				angiogenesis|cell differentiation|intracellular signal transduction|positive regulation of peptidyl-tyrosine phosphorylation|tissue remodeling	apical plasma membrane|cell surface|integral to plasma membrane|intracellular|lamellipodium membrane	protein kinase binding|signal transducer activity			ovary(2)|pancreas(1)	3						AGACCACCTCGCCCTGGTCTA	0.597													6	65					0	0	0.001168	0	0	
FBXO22	26263	broad.mit.edu	37	15	76205620	76205620	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:76205620G>A	uc002bbk.2	+	3	461	c.356G>A	c.(355-357)GGC>GAC	p.G119D	FBXO22_uc002bbj.1_Missense_Mutation_p.G119D|FBXO22_uc002bbl.2_Missense_Mutation_p.G15D	NM_147188	NP_671717	Q8NEZ5	FBX22_HUMAN	F-box only protein 22 isoform a	119					ubiquitin-dependent protein catabolic process		ubiquitin-protein ligase activity				0						GAGTGTCGTGGCCATAAGAGA	0.353													13	41					0	0	0.002450	0	0	
SCAPER	49855	broad.mit.edu	37	15	76696913	76696913	+	Missense_Mutation	SNP	G	A	A	rs149493455	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:76696913G>A	uc002bby.2	-	26	3478	c.3419C>T	c.(3418-3420)GCA>GTA	p.A1140V	SCAPER_uc010bkr.2_Missense_Mutation_p.A448V|SCAPER_uc002bbx.2_Missense_Mutation_p.A894V|SCAPER_uc002bbz.1_Missense_Mutation_p.A1011V	NM_020843	NP_065894	Q9BY12	SCAPE_HUMAN	S-phase cyclin A-associated protein in the ER	1139						endoplasmic reticulum|nucleus	zinc ion binding			large_intestine(1)|lung(1)|ovary(1)	3						TAAGAGTCCTGCGGCATGCTG	0.478													60	132					0	0	0.003610	0	0	
LOC645752	645752	broad.mit.edu	37	15	78211297	78211297	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:78211297C>T	uc010bky.2	-	11	1234	c.470G>A	c.(469-471)CGC>CAC	p.R157H		NR_027024				SubName: Full=GOLGA6 protein; Flags: Fragment;												0						CTCCTGCTTGCGTAGCCTCTG	0.572													25	62					0	0	0.009718	0	0	
ACSBG1	23205	broad.mit.edu	37	15	78466056	78466056	+	Silent	SNP	G	A	A	rs149258367	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:78466056G>A	uc002bdh.2	-	13	2024	c.1968C>T	c.(1966-1968)GCC>GCT	p.A656A	ACSBG1_uc010umw.1_Silent_p.A652A|ACSBG1_uc010umx.1_Silent_p.A414A	NM_015162	NP_055977	Q96GR2	ACBG1_HUMAN	lipidosin	656					long-chain fatty acid metabolic process|myelination|very long-chain fatty acid metabolic process	cytoplasmic membrane-bounded vesicle|endoplasmic reticulum|microsome	ATP binding|long-chain fatty acid-CoA ligase activity|very long-chain fatty acid-CoA ligase activity			ovary(1)	1						CCTGGTACACGGCCTCATCCT	0.567													12	44					0	0	0.000978	0	0	
DNAJA4	55466	broad.mit.edu	37	15	78566648	78566648	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:78566648C>T	uc002bdj.1	+	4	645	c.528C>T	c.(526-528)ACC>ACT	p.T176T	DNAJA4_uc002bdi.2_Silent_p.T205T|DNAJA4_uc002bdk.2_Silent_p.T149T|DNAJA4_uc002bdl.2_Silent_p.T91T|DNAJA4_uc002bdm.1_5'Flank	NM_001130182	NP_001123654	Q8WW22	DNJA4_HUMAN	DnaJ (Hsp40) homolog, subfamily A, member 4	176	CR-type.				protein folding|response to heat	membrane	ATP binding|heat shock protein binding|metal ion binding|unfolded protein binding			skin(1)	1						AGATCCAGACCGTGTGCATCG	0.622													4	18					0	0	0.000602	0	0	
CRABP1	1381	broad.mit.edu	37	15	78635882	78635882	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:78635882G>A	uc002bdp.2	+	3	396	c.291G>A	c.(289-291)ACG>ACA	p.T97T		NM_004378	NP_004369	P29762	RABP1_HUMAN	cellular retinoic acid binding protein 1	97					multicellular organismal development|signal transduction	cytoplasm	retinal binding|retinol binding|transporter activity				0					Alitretinoin(DB00523)|Etretinate(DB00926)	TCCACTGCACGCAAACTCTTC	0.512													6	46					0	0	0.001984	0	0	
CTSH	1512	broad.mit.edu	37	15	79229690	79229690	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:79229690C>T	uc002ben.2	-	4	260	c.163G>A	c.(163-165)GCC>ACC	p.A55T	CTSH_uc010unf.1_RNA|CTSH_uc010bll.1_Intron|CTSH_uc010ung.1_Missense_Mutation_p.A67T	NM_148979	NP_683880	P09668	CATH_HUMAN	cathepsin H isoform b precursor	67					protein destabilization|proteolysis	lysosome	cysteine-type endopeptidase activity			central_nervous_system(2)|large_intestine(1)	3						TTGTTGTGGGCGTTTATCTTC	0.512													11	57					0	0	0.003163	0	0	
RASGRF1	5923	broad.mit.edu	37	15	79382811	79382811	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:79382811G>A	uc002beq.2	-	1	405	c.30C>T	c.(28-30)GGC>GGT	p.G10G	RASGRF1_uc002bep.2_Silent_p.G10G|RASGRF1_uc002ber.3_Silent_p.G10G	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine	10					activation of Rac GTPase activity|apoptosis|induction of apoptosis by extracellular signals|long-term memory|nerve growth factor receptor signaling pathway|neuron projection development|regulation of Rac protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|growth cone|plasma membrane|synaptosome	Rho guanyl-nucleotide exchange factor activity			skin(4)|ovary(1)|central_nervous_system(1)	6						ACGCGACGTGGCCATCATTCA	0.642													14	72					0	0	0.007413	0	0	
KIAA1024	23251	broad.mit.edu	37	15	79749839	79749839	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:79749839A>G	uc002bew.1	+	2	1425	c.1350A>G	c.(1348-1350)GAA>GAG	p.E450E	KIAA1024_uc010unk.1_Silent_p.E450E	NM_015206	NP_056021	Q9UPX6	K1024_HUMAN	hypothetical protein LOC23251	450						integral to membrane				pancreas(2)|ovary(1)|central_nervous_system(1)	4						AGAAGCATGAACCAGTCAAAA	0.493													5	49					0	0	0.001984	0	0	
ZFAND6	54469	broad.mit.edu	37	15	80423565	80423565	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:80423565C>T	uc002bfe.1	+	6	719	c.408C>T	c.(406-408)AGC>AGT	p.S136S	ZFAND6_uc002bff.1_Silent_p.S136S|ZFAND6_uc002bfg.1_Silent_p.S124S|ZFAND6_uc002bfh.1_Silent_p.S136S|ZFAND6_uc002bfi.1_Silent_p.S136S	NM_019006	NP_061879	Q6FIF0	ZFAN6_HUMAN	zinc finger, AN1-type domain 6	136							DNA binding|zinc ion binding				0						AAGAGCAAAGCAAGTCTCTTG	0.358													46	121					0	0	0.003610	0	0	
KIAA1199	57214	broad.mit.edu	37	15	81172107	81172107	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:81172107C>T	uc002bfw.1	+	4	552	c.292C>T	c.(292-294)CAC>TAC	p.H98Y	KIAA1199_uc010unn.1_Missense_Mutation_p.H98Y	NM_018689	NP_061159	Q8WUJ3	K1199_HUMAN	KIAA1199 precursor	98	G8.									upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						GCGAACCCGGCACATCCTGAT	0.507													15	30					0	0	0.010504	0	0	
KIAA1199	57214	broad.mit.edu	37	15	81173308	81173308	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:81173308G>A	uc002bfw.1	+	5	708	c.448G>A	c.(448-450)GCT>ACT	p.A150T	KIAA1199_uc010unn.1_Missense_Mutation_p.A150T	NM_018689	NP_061159	Q8WUJ3	K1199_HUMAN	KIAA1199 precursor	150	G8.									upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						TAAAGGAGGCGCTCTTGAGTT	0.493													29	69					0	0	0.008361	0	0	
KIAA1199	57214	broad.mit.edu	37	15	81213380	81213380	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:81213380T>C	uc002bfw.1	+	15	2271	c.2011T>C	c.(2011-2013)TCC>CCC	p.S671P	KIAA1199_uc010unn.1_Missense_Mutation_p.S671P	NM_018689	NP_061159	Q8WUJ3	K1199_HUMAN	KIAA1199 precursor	671										upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						CAGTGCTGTGTCCACCTTCTG	0.542													3	51					0	0	0.009096	0	0	
IL16	3603	broad.mit.edu	37	15	81598350	81598350	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:81598350G>A	uc002bgh.3	+	17	3898	c.3522G>A	c.(3520-3522)ACG>ACA	p.T1174T	IL16_uc010blq.1_Silent_p.T1128T|IL16_uc002bge.3_RNA|IL16_uc010unp.1_Silent_p.T1216T|IL16_uc002bgg.2_Silent_p.T1174T|IL16_uc002bgi.1_Silent_p.T564T|IL16_uc002bgj.2_Silent_p.T668T|IL16_uc002bgk.2_Silent_p.T473T|IL16_uc002bgl.1_Silent_p.T473T|IL16_uc010unq.1_Silent_p.T473T	NM_172217	NP_757366	Q14005	IL16_HUMAN	interleukin 16 isoform 2	1174	PDZ 3.|Interaction with PPP1R12A, PPP1R12B and PPP1R12C.				immune response|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|extracellular space|nucleus|plasma membrane	cytokine activity			ovary(2)|lung(1)|skin(1)	4						AGGGGACCACGCACCATGATG	0.557													35	106					0	0	0.003755	0	0	
EFTUD1	79631	broad.mit.edu	37	15	82520574	82520574	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:82520574C>T	uc002bgt.1	-	10	1196	c.1027G>A	c.(1027-1029)GCC>ACC	p.A343T	EFTUD1_uc002bgu.1_Missense_Mutation_p.A292T	NM_024580	NP_078856	Q7Z2Z2	ETUD1_HUMAN	elongation factor Tu GTP binding domain	343					mature ribosome assembly		GTP binding|GTPase activity|ribosome binding|translation elongation factor activity			ovary(1)	1						CTGCAAATGGCGTTGATCTGA	0.378													5	55					0	0	0.000602	0	0	
FSD2	123722	broad.mit.edu	37	15	83455633	83455633	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:83455633C>A	uc002bjd.2	-	2	677	c.510G>T	c.(508-510)GAG>GAT	p.E170D	FSD2_uc010uol.1_Missense_Mutation_p.E170D|FSD2_uc010uom.1_Missense_Mutation_p.E170D	NM_001007122	NP_001007123	A1L4K1	FSD2_HUMAN	fibronectin type III and SPRY domain containing	170										central_nervous_system(1)	1						CTTCTTCATCCTCTTCCTCGG	0.502													6	92					0.00116845	0.00121571	0.001168	1	0	
BTBD1	53339	broad.mit.edu	37	15	83698894	83698894	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:83698894C>G	uc002bjn.2	-	5	1252	c.1049G>C	c.(1048-1050)CGA>CCA	p.R350P	BTBD1_uc002bjo.2_Missense_Mutation_p.R350P	NM_025238	NP_079514	Q9H0C5	BTBD1_HUMAN	BTB (POZ) domain containing 1 isoform 1	350						cytoplasmic mRNA processing body|protein complex	protein binding			ovary(1)|central_nervous_system(1)	2				all cancers(203;0.000186)		ATACCTGATTCGATCACTCGT	0.448													145	278					0	0	0.003610	0	0	
ALPK3	57538	broad.mit.edu	37	15	85400381	85400381	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:85400381G>A	uc002ble.2	+	6	3185	c.3018G>A	c.(3016-3018)CCG>CCA	p.P1006P		NM_020778	NP_065829	Q96L96	ALPK3_HUMAN	alpha-kinase 3	1006					heart development	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(3)|ovary(3)|lung(2)|skin(2)|central_nervous_system(1)|breast(1)	12			BRCA - Breast invasive adenocarcinoma(143;0.0587)			CAGCACAGCCGCCCCATGAGG	0.627													14	26					0	0	0.003163	0	0	
SLC28A1	9154	broad.mit.edu	37	15	85478614	85478614	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:85478614C>T	uc002blg.2	+	15	1648	c.1446C>T	c.(1444-1446)TGC>TGT	p.C482C	SLC28A1_uc010bnb.2_Silent_p.C482C|SLC28A1_uc010upe.1_Intron|SLC28A1_uc010upf.1_Silent_p.C482C|SLC28A1_uc010upg.1_Silent_p.C482C	NM_004213	NP_004204	O00337	S28A1_HUMAN	solute carrier family 28, member 1 isoform 1	482					nucleobase, nucleoside and nucleotide metabolic process	integral to plasma membrane|membrane fraction	nucleoside binding			skin(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(143;0.0587)			GGGAGGACTGCCCAGTGGTAG	0.607													7	20					0	0	0.004482	0	0	
AGBL1	123624	broad.mit.edu	37	15	87099509	87099509	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:87099509G>A	uc002blz.1	+	21	2992	c.2912G>A	c.(2911-2913)GGC>GAC	p.G971D		NM_152336	NP_689549	Q96MI9	CBPC4_HUMAN	ATP/GTP binding protein-like 1	971					C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding				0						CCAGTGGATGGCCTTCAGGTA	0.458													4	22					0	0	0.009096	0	0	
NTRK3	4916	broad.mit.edu	37	15	88483952	88483952	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:88483952G>T	uc002bme.1	-	14	1780	c.1618C>A	c.(1618-1620)CTG>ATG	p.L540M	NTRK3_uc002bmh.2_Missense_Mutation_p.L532M|NTRK3_uc002bmf.1_Missense_Mutation_p.L540M|NTRK3_uc010upl.1_Missense_Mutation_p.L442M|NTRK3_uc010bnh.1_Missense_Mutation_p.L532M	NM_001012338	NP_001012338	Q16288	NTRK3_HUMAN	neurotrophic tyrosine kinase, receptor, type 3	540	Cytoplasmic (Potential).|Protein kinase.				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity		ETV6/NTRK3(234)	soft_tissue(85)|kidney(66)|breast(56)|salivary_gland(26)|lung(22)|large_intestine(6)|ovary(6)|stomach(5)|central_nervous_system(3)|pancreas(3)|haematopoietic_and_lymphoid_tissue(2)|skin(1)	281			BRCA - Breast invasive adenocarcinoma(143;0.211)			TCTCGCTTCAGCACGATGTCT	0.537			T	ETV6	congenital fibrosarcoma|Secretory breast 					TSP Lung(13;0.10)			6	135					3.59834e-05	3.78692e-05	0.001168	1	0	
MRPL46	26589	broad.mit.edu	37	15	89002999	89002999	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:89002999C>T	uc002bmj.2	-	4	710	c.685G>A	c.(685-687)GCC>ACC	p.A229T	MRPL46_uc002bmi.1_3'UTR|MRPL46_uc002bmk.2_Missense_Mutation_p.A228T	NM_022163	NP_071446	Q9H2W6	RM46_HUMAN	mitochondrial ribosomal protein L46 precursor	229						mitochondrion|ribosome	hydrolase activity			central_nervous_system(1)	1	Lung NSC(78;0.203)		BRCA - Breast invasive adenocarcinoma(143;0.188)			AACACCTTGGCTCCGAGGTTA	0.498													7	42					0	0	0.004482	0	0	
AEN	64782	broad.mit.edu	37	15	89172498	89172498	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:89172498G>A	uc002bmt.2	+	3	733	c.582G>A	c.(580-582)GCG>GCA	p.A194A	AEN_uc010bnm.1_Silent_p.A194A	NM_022767	NP_073604	Q8WTP8	AEN_HUMAN	interferon stimulated exonuclease gene	194	Exonuclease.				apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|response to ionizing radiation	nucleolus|nucleoplasm	exonuclease activity|nucleic acid binding				0						TGGGGCACGCGCTGCACAACG	0.607													9	42					0	0	0.001855	0	0	
ACAN	176	broad.mit.edu	37	15	89382100	89382100	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:89382100C>T	uc010upo.1	+	3	651	c.277C>T	c.(277-279)CGC>TGC	p.R93C	ACAN_uc002bmx.2_Missense_Mutation_p.R93C|ACAN_uc010upp.1_Missense_Mutation_p.R93C|ACAN_uc002bna.2_RNA	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	aggrecan isoform 2 precursor	93					cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			CACTGAAGGGCGCGTGCGGGT	0.622													19	44					0	0	0.008871	0	0	
RHCG	51458	broad.mit.edu	37	15	90039664	90039664	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:90039664C>T	uc002bnz.2	-	1	136	c.112G>A	c.(112-114)GCC>ACC	p.A38T	RHCG_uc002boa.2_RNA|RHCG_uc010bnq.1_5'UTR	NM_016321	NP_057405	Q9UBD6	RHCG_HUMAN	Rh family, C glycoprotein	38	Extracellular (Potential).				amine transport|cellular ion homeostasis|epithelial cell differentiation|transepithelial ammonium transport	apical plasma membrane|basolateral plasma membrane|cytoplasmic vesicle|integral to plasma membrane	ammonia transmembrane transporter activity|ammonium transmembrane transporter activity|ankyrin binding			kidney(1)	1	Lung NSC(78;0.0237)|all_lung(78;0.0478)					CACCAGTGGGCGTCGGCCTCG	0.602													20	100					0	0	0.007413	0	0	
FES	2242	broad.mit.edu	37	15	91436365	91436365	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:91436365G>A	uc002bpv.2	+	15	1958	c.1862G>A	c.(1861-1863)CGT>CAT	p.R621H	FES_uc010uqj.1_Missense_Mutation_p.R493H|FES_uc010uqk.1_Missense_Mutation_p.R603H|FES_uc002bpw.2_RNA|FES_uc010bny.2_Intron|FES_uc002bpx.2_Missense_Mutation_p.R551H|FES_uc002bpy.2_Missense_Mutation_p.R563H	NM_002005	NP_001996	P07332	FES_HUMAN	feline sarcoma oncogene isoform 1	621	Protein kinase.				axon guidance|cell proliferation|peptidyl-tyrosine phosphorylation	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(2)	2	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)			AACATCGTGCGTCTCATTGGT	0.652													5	17					0	0	0.000602	0	0	
MAN2A2	4122	broad.mit.edu	37	15	91453478	91453478	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:91453478G>T	uc010bnz.2	+	10	1648	c.1533G>T	c.(1531-1533)CGG>CGT	p.R511R	MAN2A2_uc010boa.2_Silent_p.R553R|MAN2A2_uc002bqc.2_Silent_p.R511R|MAN2A2_uc010uql.1_Silent_p.R173R|MAN2A2_uc010uqm.1_Intron|MAN2A2_uc010uqn.1_5'Flank	NM_006122	NP_006113	P49641	MA2A2_HUMAN	mannosidase, alpha, class 2A, member 2	511	Lumenal (Potential).				mannose metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-mannosidase activity|carbohydrate binding|mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase activity|zinc ion binding			large_intestine(2)|ovary(1)	3	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)			ACACTTCCCGGCCCTTCTACA	0.607													17	31					2.4624e-09	2.63987e-09	0.008871	1	0	
MAN2A2	4122	broad.mit.edu	37	15	91461902	91461902	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:91461902G>A	uc010bnz.2	+	22	3332	c.3217G>A	c.(3217-3219)GCA>ACA	p.A1073T	MAN2A2_uc002bqc.2_Missense_Mutation_p.A1073T|MAN2A2_uc010uql.1_Missense_Mutation_p.A735T|MAN2A2_uc010uqm.1_Missense_Mutation_p.A652T|MAN2A2_uc010uqn.1_RNA	NM_006122	NP_006113	P49641	MA2A2_HUMAN	mannosidase, alpha, class 2A, member 2	1073					mannose metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-mannosidase activity|carbohydrate binding|mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase activity|zinc ion binding			large_intestine(2)|ovary(1)	3	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)			GGCGGAGACCGCACTCATCTT	0.607													4	26					0	0	0.001984	0	0	
UNC45A	55898	broad.mit.edu	37	15	91483621	91483621	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:91483621G>A	uc002bqg.2	+	6	945	c.605G>A	c.(604-606)CGT>CAT	p.R202H	UNC45A_uc002bqd.2_Missense_Mutation_p.R187H|UNC45A_uc010uqo.1_Missense_Mutation_p.R194H|UNC45A_uc010uqp.1_RNA|UNC45A_uc010uqq.1_Missense_Mutation_p.R202H	NM_018671	NP_061141	Q9H3U1	UN45A_HUMAN	smooth muscle cell associated protein-1 isoform	202					cell differentiation|muscle organ development	nucleus|perinuclear region of cytoplasm	protein binding			ovary(2)	2	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.189)			CTCTTGCAACGTTTACTGGAC	0.572													20	49					0	0	0.001882	0	0	
PRC1	9055	broad.mit.edu	37	15	91517404	91517404	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:91517404G>A	uc002bqm.2	-	11	1580	c.1423C>T	c.(1423-1425)CGA>TGA	p.R475*	PRC1_uc002bqn.2_Nonsense_Mutation_p.R475*|PRC1_uc002bqo.2_Nonsense_Mutation_p.R475*|PRC1_uc010uqs.1_Nonsense_Mutation_p.R434*	NM_003981	NP_003972	O43663	PRC1_HUMAN	protein regulator of cytokinesis 1 isoform 1	475	Unstructured, Arg/Lys rich.				cytokinesis|mitotic spindle elongation	cytoplasm|nucleus|spindle microtubule|spindle pole	protein binding			ovary(1)|skin(1)	2	Lung NSC(78;0.0987)|all_lung(78;0.175)					GCCAGTCCTCGCCGCTTGCTA	0.512													15	38					0	0	0.007413	0	0	
SV2B	9899	broad.mit.edu	37	15	91769547	91769547	+	Silent	SNP	C	T	T	rs147933433	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:91769547C>T	uc002bqv.2	+	1	445	c.54C>T	c.(52-54)GGC>GGT	p.G18G	SV2B_uc002bqt.2_Silent_p.G18G|SV2B_uc010uqv.1_Intron|SV2B_uc002bqu.3_RNA	NM_014848	NP_055663	Q7L1I2	SV2B_HUMAN	synaptic vesicle protein 2B homolog	18	Cytoplasmic (Potential).				neurotransmitter transport	acrosomal vesicle|cell junction|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			ovary(3)|central_nervous_system(2)|skin(2)|upper_aerodigestive_tract(1)	8	Lung NSC(78;0.0987)|all_lung(78;0.172)		BRCA - Breast invasive adenocarcinoma(143;0.0895)			CCAGTGATGGCTATTACCGCG	0.522													5	60					0	0	0.001168	0	0	
SLCO3A1	28232	broad.mit.edu	37	15	92669301	92669301	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:92669301G>A	uc002bqx.2	+	6	1386	c.1185G>A	c.(1183-1185)GCG>GCA	p.A395A	SLCO3A1_uc002bqy.2_Silent_p.A395A|SLCO3A1_uc010boc.1_RNA|SLCO3A1_uc002bqz.1_Silent_p.A337A	NM_013272	NP_037404	Q9UIG8	SO3A1_HUMAN	solute carrier organic anion transporter family,	395	Helical; Name=8; (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	sodium-independent organic anion transmembrane transporter activity			skin(1)	1	Lung NSC(78;0.0158)|all_lung(78;0.0255)		BRCA - Breast invasive adenocarcinoma(143;0.0841)			GGATGACTGCGATCCCGTGTG	0.607													12	33					0	0	0.001855	0	0	
C15orf32	145858	broad.mit.edu	37	15	93015523	93015523	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:93015523C>T	uc002brc.1	+	1	617	c.145C>T	c.(145-147)CCA>TCA	p.P49S	C15orf32_uc010bod.1_RNA	NM_153040	NP_694585	Q32M92	CO032_HUMAN	hypothetical protein LOC145858	49										ovary(1)	1	Lung NSC(78;0.0893)|all_lung(78;0.125)		BRCA - Breast invasive adenocarcinoma(143;0.0493)|OV - Ovarian serous cystadenocarcinoma(32;0.125)			CTCGGCGAGGCCATGTGTCTG	0.458													17	52					0	0	0.010504	0	0	
CHD2	1106	broad.mit.edu	37	15	93527700	93527700	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:93527700G>A	uc002bsp.2	+	25	3782	c.3207G>A	c.(3205-3207)ATG>ATA	p.M1069I	CHD2_uc002bso.1_Missense_Mutation_p.M1069I	NM_001271	NP_001262	O14647	CHD2_HUMAN	chromodomain helicase DNA binding protein 2	1069					regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|skin(1)	2	Lung NSC(78;0.00976)|all_lung(78;0.016)		BRCA - Breast invasive adenocarcinoma(143;0.0282)|OV - Ovarian serous cystadenocarcinoma(32;0.0814)			AAATTTATATGCTGCCTCGAA	0.398													11	24					0	0	0.008291	0	0	
CHD2	1106	broad.mit.edu	37	15	93540578	93540578	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:93540578G>A	uc002bsp.2	+	30	4405	c.3830G>A	c.(3829-3831)GGC>GAC	p.G1277D	CHD2_uc002bso.1_Missense_Mutation_p.G1277D	NM_001271	NP_001262	O14647	CHD2_HUMAN	chromodomain helicase DNA binding protein 2	1277					regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|skin(1)	2	Lung NSC(78;0.00976)|all_lung(78;0.016)		BRCA - Breast invasive adenocarcinoma(143;0.0282)|OV - Ovarian serous cystadenocarcinoma(32;0.0814)			TATGAACATGGCTATGGAAAC	0.408													27	61					0	0	0.007291	0	0	
NR2F2	7026	broad.mit.edu	37	15	96875556	96875556	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:96875556G>A	uc010uri.1	+	1	1446	c.222G>A	c.(220-222)CAG>CAA	p.Q74Q	NR2F2_uc002btp.2_Intron|NR2F2_uc010urj.1_5'Flank|MIR1469_hsa-mir-1469|MI0007074_5'Flank|NR2F2_uc010urk.1_5'Flank	NM_021005	NP_066285	P24468	COT2_HUMAN	nuclear receptor subfamily 2, group F, member 2	74	Poly-Gln.				lipid metabolic process|negative regulation of cyclin-dependent protein kinase activity|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|regulation of transcription involved in lymphatic endothelial cell fate commitment	nucleus	ligand-regulated transcription factor activity|protein homodimerization activity|retinoic acid binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription corepressor activity|zinc ion binding			ovary(2)|breast(1)	3	Lung NSC(78;0.0186)|Melanoma(26;0.0195)|all_lung(78;0.0297)		OV - Ovarian serous cystadenocarcinoma(32;0.0856)			AGCAGCAGCAGCAACACATCG	0.697													4	9					0	0	0.009096	0	0	
IGF1R	3480	broad.mit.edu	37	15	99486223	99486223	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:99486223C>T	uc002bul.2	+	19	3579	c.3529C>T	c.(3529-3531)CGC>TGC	p.R1177C	IGF1R_uc010bon.2_Missense_Mutation_p.R1176C	NM_000875	NP_000866	P08069	IGF1R_HUMAN	insulin-like growth factor 1 receptor precursor	1177	Protein kinase.|Cytoplasmic (Potential).				anti-apoptosis|immune response|insulin receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of DNA replication|protein autophosphorylation|protein tetramerization	microsome	ATP binding|identical protein binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor receptor activity|metal ion binding|phosphatidylinositol 3-kinase binding			lung(3)|kidney(3)|ovary(1)|central_nervous_system(1)	8	all_cancers(4;4.17e-14)|all_epithelial(3;4.34e-15)|Lung NSC(78;0.00175)|all_lung(78;0.00351)|Melanoma(26;0.00505)|Medulloblastoma(229;0.163)		Epithelial(2;1.94e-12)|all cancers(5;6.83e-11)|BRCA - Breast invasive adenocarcinoma(2;2.88e-09)|OV - Ovarian serous cystadenocarcinoma(32;0.00261)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Mecasermin(DB01277)	GCTGCCCGTGCGCTGGATGTC	0.542													9	101					0	0	0.004482	0	0	
IGF1R	3480	broad.mit.edu	37	15	99500550	99500550	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:99500550G>A	uc002bul.2	+	21	4033	c.3983G>A	c.(3982-3984)GGC>GAC	p.G1328D	IGF1R_uc010bon.2_Missense_Mutation_p.G1327D	NM_000875	NP_000866	P08069	IGF1R_HUMAN	insulin-like growth factor 1 receptor precursor	1328	Cytoplasmic (Potential).				anti-apoptosis|immune response|insulin receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of DNA replication|protein autophosphorylation|protein tetramerization	microsome	ATP binding|identical protein binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor receptor activity|metal ion binding|phosphatidylinositol 3-kinase binding			lung(3)|kidney(3)|ovary(1)|central_nervous_system(1)	8	all_cancers(4;4.17e-14)|all_epithelial(3;4.34e-15)|Lung NSC(78;0.00175)|all_lung(78;0.00351)|Melanoma(26;0.00505)|Medulloblastoma(229;0.163)		Epithelial(2;1.94e-12)|all cancers(5;6.83e-11)|BRCA - Breast invasive adenocarcinoma(2;2.88e-09)|OV - Ovarian serous cystadenocarcinoma(32;0.00261)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Mecasermin(DB01277)	GCCGAGAACGGCCCCGGCCCT	0.687													5	6					0	0	0.001984	0	0	
SYNM	23336	broad.mit.edu	37	15	99653893	99653893	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:99653893G>A	uc002bup.2	+	4	1028	c.908G>A	c.(907-909)GGC>GAC	p.G303D	SYNM_uc002buo.2_Missense_Mutation_p.G303D|SYNM_uc002buq.2_RNA	NM_145728	NP_663780	O15061	SYNEM_HUMAN	desmuslin isoform A	303	Interaction with DMD and UTRN.|Tail.				intermediate filament cytoskeleton organization	adherens junction|costamere|intermediate filament|neurofilament cytoskeleton	intermediate filament binding|structural constituent of cytoskeleton|structural constituent of muscle|vinculin binding			ovary(3)|central_nervous_system(1)	4						GTGAAGACCGGCCTCAGTCTG	0.567													7	17					0	0	0.001984	0	0	
SYNM	23336	broad.mit.edu	37	15	99671250	99671250	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:99671250G>A	uc002bup.2	+	6	2805	c.2685G>A	c.(2683-2685)GCG>GCA	p.A895A	SYNM_uc002buo.2_Silent_p.A895A|SYNM_uc002buq.2_Intron	NM_145728	NP_663780	O15061	SYNEM_HUMAN	desmuslin isoform A	895	Tail.				intermediate filament cytoskeleton organization	adherens junction|costamere|intermediate filament|neurofilament cytoskeleton	intermediate filament binding|structural constituent of cytoskeleton|structural constituent of muscle|vinculin binding			ovary(3)|central_nervous_system(1)	4						ATGTCCCAGCGCCCTCTCTGG	0.527													5	14					0	0	0.001168	0	0	
LRRK1	79705	broad.mit.edu	37	15	101567506	101567506	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:101567506C>T	uc002bwr.2	+	18	2765	c.2446C>T	c.(2446-2448)CGA>TGA	p.R816*	LRRK1_uc010usb.1_RNA|LRRK1_uc010usc.1_RNA	NM_024652	NP_078928	Q38SD2	LRRK1_HUMAN	leucine-rich repeat kinase 1	816	Roc.				small GTPase mediated signal transduction	mitochondrion	ATP binding|GTP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|lung(4)|central_nervous_system(3)|large_intestine(1)	12	Melanoma(26;0.00505)|Lung NSC(78;0.00793)|all_lung(78;0.0094)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			GGAAGGGCTGCGACAGCTGAT	0.592													19	28					0	0	0.008871	0	0	
WASH3P	374666	broad.mit.edu	37	15	102515299	102515299	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:102515299G>A	uc002cdi.2	+	9	1943	c.523G>A	c.(523-525)GGC>AGC	p.G175S	WASH3P_uc002cdl.2_Missense_Mutation_p.G175S|WASH3P_uc002cdk.2_RNA|WASH3P_uc002cdp.2_Missense_Mutation_p.G175S|WASH3P_uc010bpo.2_RNA|WASH3P_uc002cdq.2_RNA|WASH3P_uc002cdr.2_RNA	NR_003659				RecName: Full=WAS protein family homolog 2; AltName: Full=Protein FAM39B; AltName: Full=CXYorf1-like protein on chromosome 2;												0						TGGGGGCATCGGCAAGGCCAA	0.652													4	13					0	0	0.009096	0	0	
AXIN1	8312	broad.mit.edu	37	16	339492	339492	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:339492C>T	uc002cgp.1	-	10	2587	c.2410G>A	c.(2410-2412)GCT>ACT	p.A804T	AXIN1_uc002cgq.1_Missense_Mutation_p.A768T	NM_003502	NP_003493	O15169	AXIN1_HUMAN	axin 1 isoform a	804	DIX.				activation of JUN kinase activity|activation of protein kinase activity|apoptosis|axial mesoderm formation|canonical Wnt receptor signaling pathway involved in neural plate anterior/posterior pattern formation|cellular protein complex assembly|cellular response to organic cyclic compound|cytoplasmic microtubule organization|determination of left/right symmetry|dorsal/ventral axis specification|embryonic eye morphogenesis|embryonic skeletal joint morphogenesis|forebrain anterior/posterior pattern formation|muscle cell development|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of fat cell differentiation|olfactory placode formation|optic placode formation|positive regulation of JNK cascade|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-threonine phosphorylation|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of transcription, DNA-dependent|positive regulation of ubiquitin-protein ligase activity|regulation of catenin import into nucleus|tail morphogenesis|Wnt receptor signaling pathway involved in forebrain neuron fate commitment|Wnt receptor signaling pathway involved in somitogenesis	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|cell cortex|cytoplasmic membrane-bounded vesicle|cytoplasmic microtubule|cytosol|lateral plasma membrane|nucleus|perinuclear region of cytoplasm|postsynaptic density	armadillo repeat domain binding|beta-catenin binding|GTPase activator activity|I-SMAD binding|p53 binding|protein complex scaffold|protein homodimerization activity|protein kinase binding|signal transducer activity|ubiquitin protein ligase binding			breast(1)|liver(1)	2		all_cancers(16;2.75e-07)|all_epithelial(16;1.6e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00774)|all_lung(18;0.0187)				AGGGTGACAGCGCGGCCCCTC	0.657													9	18					0	0	0.008291	0	0	
RAB11FIP3	9727	broad.mit.edu	37	16	511442	511442	+	Silent	SNP	C	T	T	rs149492456		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:511442C>T	uc002chf.2	+	2	1092	c.753C>T	c.(751-753)CTC>CTT	p.L251L		NM_014700	NP_055515	O75154	RFIP3_HUMAN	rab11-family interacting protein 3 isoform 1	251	EF-hand 2.|2 (Potential).				cell cycle|cytokinesis|endocytic recycling|protein transport	centrosome|cleavage furrow|midbody|recycling endosome membrane	ADP-ribosylation factor binding|calcium ion binding|protein homodimerization activity|Rab GTPase binding				0		Hepatocellular(16;0.0218)				CCAGTGGGCTCGGCGTGATCA	0.468													10	117					0	0	0.001855	0	0	
WDR90	197335	broad.mit.edu	37	16	716352	716352	+	Splice_Site	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:716352T>C	uc002cii.1	+	37	4794	c.4740_splice	c.e37+2	p.E1580_splice	WDR90_uc002cij.1_Intron|WDR90_uc002cil.1_Splice_Site|WDR90_uc002cin.1_Splice_Site_p.E195_splice|WDR90_uc010uul.1_Splice_Site_p.E179_splice|WDR90_uc002cio.1_Splice_Site_p.E179_splice|WDR90_uc010bqx.1_Splice_Site_p.E179_splice|RHOT2_uc010uum.1_5'Flank|RHOT2_uc002cip.2_5'Flank|RHOT2_uc002ciq.2_5'Flank	NM_145294	NP_660337	Q96KV7	WDR90_HUMAN	WD repeat domain 90											ovary(1)	1		Hepatocellular(780;0.0218)				TGCAAAGAGGTAAAGCAGCCC	0.637													10	31					0	0	0.000978	0	0	
RHOT2	89941	broad.mit.edu	37	16	721922	721922	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:721922G>A	uc002cip.2	+	13	1084	c.1017G>A	c.(1015-1017)GCG>GCA	p.A339A	RHOT2_uc002ciq.2_Silent_p.A232A|RHOT2_uc010bqy.2_Silent_p.A118A	NM_138769	NP_620124	Q8IXI1	MIRO2_HUMAN	ras homolog gene family, member T2	339	EF-hand 2.|Mitochondrial intermembrane (Potential).				apoptosis|cellular homeostasis|mitochondrion transport along microtubule|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to mitochondrial outer membrane|plasma membrane	calcium ion binding|GTP binding|GTPase activity|protein binding			pancreas(1)	1		Hepatocellular(780;0.0218)				TCCCAGCAGCGCCCTGGGGCC	0.637													8	25					0	0	0.006214	0	0	
NARFL	64428	broad.mit.edu	37	16	780500	780500	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:780500C>T	uc002cjr.2	-	11	1360	c.1348G>A	c.(1348-1350)GAC>AAC	p.D450N	NARFL_uc002cjp.2_Missense_Mutation_p.D348N|NARFL_uc002cjq.2_Missense_Mutation_p.D348N|NARFL_uc002cjs.2_Missense_Mutation_p.D232N	NM_022493	NP_071938	Q9H6Q4	NARFL_HUMAN	nuclear prelamin A recognition factor-like	450					iron-sulfur cluster assembly|oxygen homeostasis|regulation of transcription, DNA-dependent|response to hypoxia		4 iron, 4 sulfur cluster binding|metal ion binding				0		Hepatocellular(780;0.0218)				CACTCCGAGTCCGTGCCCTGC	0.667													8	28					0	0	0.000978	0	0	
BAIAP3	8938	broad.mit.edu	37	16	1394700	1394700	+	Splice_Site	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:1394700G>A	uc002clk.1	+	19	1862	c.1862_splice	c.e19+1	p.S621_splice	BAIAP3_uc002clj.2_Splice_Site_p.S603_splice|BAIAP3_uc010uuz.1_Splice_Site_p.S586_splice|BAIAP3_uc010uva.1_Splice_Site_p.S558_splice|BAIAP3_uc010uvc.1_Splice_Site_p.S550_splice	NM_003933	NP_003924	O94812	BAIP3_HUMAN	BAI1-associated protein 3						G-protein coupled receptor protein signaling pathway|neurotransmitter secretion		protein C-terminus binding			pancreas(1)	1		Hepatocellular(780;0.0893)				TCTTCCACAGGTGGGCCTGGC	0.647													11	23					0	0	0.003163	0	0	
CLCN7	1186	broad.mit.edu	37	16	1510842	1510842	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:1510842G>A	uc002clv.2	-	5	569	c.459C>T	c.(457-459)GGC>GGT	p.G153G	CLCN7_uc002clw.2_Silent_p.G129G	NM_001287	NP_001278	P51798	CLCN7_HUMAN	chloride channel 7 isoform a	153	Helical; (By similarity).					integral to membrane|lysosomal membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity			central_nervous_system(2)|ovary(1)|skin(1)	4		Hepatocellular(780;0.0893)				TGTACTTGAGGCCAGCCAGGT	0.637													4	32					0	0	0.000602	0	0	
EME2	197342	broad.mit.edu	37	16	1825067	1825067	+	Missense_Mutation	SNP	C	T	T	rs148313225	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:1825067C>T	uc002cmq.1	+	4	503	c.503C>T	c.(502-504)CCC>CTC	p.P168L	MRPS34_uc002cmn.2_5'Flank|MRPS34_uc002cmo.2_5'Flank|MRPS34_uc002cmp.1_5'Flank|EME2_uc010brw.1_Missense_Mutation_p.P168L	NM_001010865	NP_001010865	A4GXA9	EME2_HUMAN	essential meiotic endonuclease 1 homolog 2	168					DNA recombination|DNA repair	nucleus	DNA binding|endonuclease activity			lung(1)|central_nervous_system(1)|pancreas(1)	3						CACTGGGTGCCCTGGATCTCC	0.647								Direct_reversal_of_damage|Homologous_recombination					7	80					0	0	0.000978	0	0	
ZNF598	90850	broad.mit.edu	37	16	2048277	2048277	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:2048277C>T	uc002cof.1	-	14	2686	c.2671G>A	c.(2671-2673)GAC>AAC	p.D891N	ZNF598_uc002coe.1_Missense_Mutation_p.D255N	NM_178167	NP_835461	Q86UK7	ZN598_HUMAN	zinc finger protein 598	891						intracellular	zinc ion binding			lung(1)|breast(1)	2						GGGAAGTCGTCGTCCCGGGCA	0.687													22	21					0	0	0.006320	0	0	
TSC2	7249	broad.mit.edu	37	16	2126084	2126084	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:2126084C>A	uc002con.2	+	24	2761	c.2655C>A	c.(2653-2655)ATC>ATA	p.I885I	TSC2_uc010bsd.2_Silent_p.I885I|TSC2_uc002coo.2_Silent_p.I885I|TSC2_uc010uvv.1_Silent_p.I848I|TSC2_uc010uvw.1_Silent_p.I836I|TSC2_uc002cop.2_Silent_p.I685I	NM_000548	NP_000539	P49815	TSC2_HUMAN	tuberous sclerosis 2 isoform 1	885					cell cycle arrest|endocytosis|heart development|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|negative regulation of cell size|negative regulation of phosphatidylinositol 3-kinase cascade|negative regulation of protein kinase B signaling cascade|negative regulation of TOR signaling cascade|negative regulation of Wnt receptor signaling pathway|nerve growth factor receptor signaling pathway|neural tube closure|phosphatidylinositol-mediated signaling|positive chemotaxis|protein import into nucleus|protein kinase B signaling cascade|regulation of endocytosis|regulation of insulin receptor signaling pathway|regulation of small GTPase mediated signal transduction	Golgi apparatus|nucleus|perinuclear region of cytoplasm|TSC1-TSC2 complex	GTPase activator activity|protein homodimerization activity			central_nervous_system(4)|lung(3)|ovary(2)|pancreas(1)	10		Hepatocellular(780;0.0202)				ATCAGTACATCGTGTGTCTGG	0.557			D|Mis|N|F|S			hamartoma|renal cell			Tuberous_Sclerosis				17	23					5.01169e-05	5.26904e-05	0.004990	1	0	
PKD1	5310	broad.mit.edu	37	16	2152614	2152614	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:2152614C>T	uc002cos.1	-	25	9178	c.8969G>A	c.(8968-8970)AGT>AAT	p.S2990N	PKD1_uc002cot.1_Missense_Mutation_p.S2990N|PKD1_uc010bse.1_RNA	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	2990	Extracellular (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						CAGATGGTAACTCCCCGCTGG	0.647													9	11					0	0	0.004482	0	0	
PKD1	5310	broad.mit.edu	37	16	2162937	2162937	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:2162937C>T	uc002cos.1	-	13	3222	c.3013G>A	c.(3013-3015)GTC>ATC	p.V1005I	PKD1_uc002cot.1_Missense_Mutation_p.V1005I	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	1005	Extracellular (Potential).|PKD 4.				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						TTCACGGTGACGTTGCTCACG	0.642													12	18					0	0	0.002450	0	0	
MLST8	64223	broad.mit.edu	37	16	2258304	2258304	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:2258304G>A	uc002coz.2	+	7	786	c.667G>A	c.(667-669)GCC>ACC	p.A223T	MLST8_uc002coy.2_Missense_Mutation_p.A223T|MLST8_uc002cpa.2_Missense_Mutation_p.A39T|MLST8_uc002cpb.2_Missense_Mutation_p.A222T|MLST8_uc010uvx.1_Missense_Mutation_p.A157T|MLST8_uc002cpc.2_Missense_Mutation_p.A223T|MLST8_uc002cpd.2_Missense_Mutation_p.A157T|MLST8_uc002cpe.2_Missense_Mutation_p.A223T|MLST8_uc002cpg.2_Missense_Mutation_p.A242T|MLST8_uc002cph.2_Intron|MLST8_uc002cpf.2_Missense_Mutation_p.A223T	NM_022372	NP_071767	Q9BVC4	LST8_HUMAN	G protein beta subunit-like	223	WD 6.				insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of TOR signaling cascade|T cell costimulation	cytosol	protein binding				0						CACGCGCTACGCCCTGCAGTG	0.667													16	70					0	0	0.008871	0	0	
E4F1	1877	broad.mit.edu	37	16	2284179	2284179	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:2284179G>A	uc002cpm.2	+	10	1431	c.1383G>A	c.(1381-1383)AGG>AGA	p.R461R	E4F1_uc010bsi.2_Silent_p.R461R|E4F1_uc010bsj.2_Intron|DNASE1L2_uc002cpn.2_5'Flank|DNASE1L2_uc002cpo.2_5'Flank|DNASE1L2_uc002cpp.2_5'Flank|DNASE1L2_uc002cpq.2_5'Flank	NM_004424	NP_004415	Q66K89	E4F1_HUMAN	p120E4F	461	Mediates interaction with CDKN2A.|Interaction with BMI1.				cell division|cell proliferation|interspecies interaction between organisms|mitosis|regulation of growth	cytoplasm|nucleoplasm	DNA binding|ligase activity|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)	1						CAGGGCCGAGGCCGTTCGCCT	0.701													8	6					0	0	0.004482	0	0	
SRRM2	23524	broad.mit.edu	37	16	2815022	2815022	+	Missense_Mutation	SNP	G	A	A	rs151214324		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:2815022G>A	uc002crk.2	+	11	5042	c.4493G>A	c.(4492-4494)CGT>CAT	p.R1498H	SRRM2_uc002crj.1_Missense_Mutation_p.R1402H|SRRM2_uc002crl.1_Missense_Mutation_p.R1498H|SRRM2_uc010bsu.1_Missense_Mutation_p.R1402H	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	1498	Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						CCGAGGAGTCGTTCTCCATCA	0.498													7	219					0	0	0.001984	0	0	
SRRM2	23524	broad.mit.edu	37	16	2815081	2815081	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:2815081G>A	uc002crk.2	+	11	5101	c.4552G>A	c.(4552-4554)GGG>AGG	p.G1518R	SRRM2_uc002crj.1_Missense_Mutation_p.G1422R|SRRM2_uc002crl.1_Missense_Mutation_p.G1518R|SRRM2_uc010bsu.1_Missense_Mutation_p.G1422R	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	1518	Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						AGAAAGAAGCGGGTCAGAATC	0.527													5	192					0	0	0.001168	0	0	
SRRM2	23524	broad.mit.edu	37	16	2816576	2816576	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:2816576G>A	uc002crk.2	+	11	6596	c.6047G>A	c.(6046-6048)CGC>CAC	p.R2016H	SRRM2_uc002crj.1_Missense_Mutation_p.R1920H|SRRM2_uc002crl.1_Missense_Mutation_p.R2016H|SRRM2_uc010bsu.1_Missense_Mutation_p.R1920H	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	2016	Arg-rich.|Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						GTGACACGCCGCCGCTCTAGG	0.577													23	36					0	0	0.004656	0	0	
FLYWCH1	84256	broad.mit.edu	37	16	2988353	2988353	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:2988353G>A	uc002csd.2	+	8	2309	c.1946G>A	c.(1945-1947)CGC>CAC	p.R649H	FLYWCH1_uc002csb.2_Missense_Mutation_p.R648H|FLYWCH1_uc002csc.2_Missense_Mutation_p.R648H|FLYWCH1_uc010bsv.2_Missense_Mutation_p.R373H|FLYWCH1_uc002cse.2_Missense_Mutation_p.R104H	NM_032296	NP_115672	Q4VC44	FWCH1_HUMAN	FLYWCH-type zinc finger 1 isoform a	649	FLYWCH-type 5.					nucleus	DNA binding|metal ion binding				0						CAGGGCCACCGCATCATGGTC	0.682													4	1					0	0	0.000602	0	0	
ZNF205	7755	broad.mit.edu	37	16	3169748	3169748	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:3169748C>T	uc002cub.2	+	7	1222	c.1087C>T	c.(1087-1089)CCC>TCC	p.P363S	ZNF205_uc002cua.2_Missense_Mutation_p.P363S	NM_001042428	NP_001035893	O95201	ZN205_HUMAN	zinc finger protein 205	363					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding				0						GGGCGAGAAGCCCTACACCTG	0.657													5	63					0	0	0.000602	0	0	
ZNF75A	7627	broad.mit.edu	37	16	3367335	3367335	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:3367335G>A	uc002cut.3	+	6	883	c.357G>A	c.(355-357)ATG>ATA	p.M119I	ZNF75A_uc002cuv.3_RNA	NM_153028	NP_694573	Q96N20	ZN75A_HUMAN	zinc finger protein 75a	119					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1						ATTTTGATATGCACAGAGTGG	0.388													27	68					0	0	0.005443	0	0	
OR2C1	4993	broad.mit.edu	37	16	3406131	3406131	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:3406131G>T	uc002cuw.1	+	1	243	c.191G>T	c.(190-192)AGC>ATC	p.S64I		NM_012368	NP_036500	O95371	OR2C1_HUMAN	olfactory receptor, family 2, subfamily C,	64	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TTCTTCCTCAGCAACCTCTCC	0.522													10	97					9.70103e-10	1.04238e-09	0.008291	1	0	
ZNF434	54925	broad.mit.edu	37	16	3434741	3434741	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:3434741G>A	uc002cuz.2	-	5	1118	c.316C>T	c.(316-318)CGC>TGC	p.R106C	ZNF434_uc002cux.3_Missense_Mutation_p.R317C|ZNF434_uc010uwx.1_Missense_Mutation_p.R29C|ZNF434_uc002cuy.3_Missense_Mutation_p.R29C|ZNF434_uc010uwy.1_Missense_Mutation_p.R29C|ZNF434_uc010uwz.1_Missense_Mutation_p.R317C|ZNF434_uc010uxa.1_Missense_Mutation_p.R106C	NM_017810	NP_060280	Q9NX65	ZN434_HUMAN	zinc finger protein 434	106					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						CTCACTTTGCGGTAACTCAAC	0.542													6	180					0	0	0.001168	0	0	
BTBD12	84464	broad.mit.edu	37	16	3640237	3640237	+	Silent	SNP	C	T	T	rs149748089		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:3640237C>T	uc002cvp.2	-	12	4029	c.3402G>A	c.(3400-3402)TCG>TCA	p.S1134S		NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	1134	Interaction with PLK1 and TERF2-TERF2IP.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						ATCTGGAGCTCGAATGGTCAG	0.478								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				5	69					0	0	0.000602	0	0	
CREBBP	1387	broad.mit.edu	37	16	3781373	3781373	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:3781373G>A	uc002cvv.2	-	30	5196	c.4992C>T	c.(4990-4992)CGC>CGT	p.R1664R	CREBBP_uc002cvw.2_Silent_p.R1626R	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	1664	Interaction with TRERF1.		R -> H (in RSTS1; abolishes acetyltransferase activity).		cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		GGAAGGCGTCGCGCCCATCCA	0.642			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				4	7					0	0	0.009096	0	0	
DNAJA3	9093	broad.mit.edu	37	16	4491417	4491417	+	Silent	SNP	C	T	T	rs139524293		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:4491417C>T	uc002cwk.2	+	4	496	c.471C>T	c.(469-471)TAC>TAT	p.Y157Y	DNAJA3_uc002cwl.2_Silent_p.Y157Y|DNAJA3_uc010uxk.1_Intron	NM_005147	NP_005138	Q96EY1	DNJA3_HUMAN	DnaJ (Hsp40) homolog, subfamily A, member 3	157	J.				activation of caspase activity|negative regulation of apoptosis|negative regulation of caspase activity|negative regulation of cell proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interferon-gamma-mediated signaling pathway|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein kinase activity|neuromuscular junction development|positive regulation of apoptosis|positive regulation of protein ubiquitination|protein folding|protein folding|protein stabilization|response to heat|response to interferon-gamma	cytosol|mitochondrial matrix|mitochondrial nucleoid|nucleus	ATP binding|heat shock protein binding|interferon-gamma receptor binding|metal ion binding|NF-kappaB binding|protein kinase binding			ovary(2)|breast(2)	4						ACGATGCCTACGGCTCTGCAG	0.577													14	23					0	0	0.003163	0	0	
GLYR1	84656	broad.mit.edu	37	16	4873830	4873830	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:4873830C>T	uc002cxx.3	-	6	653	c.616G>A	c.(616-618)GCA>ACA	p.A206T	GLYR1_uc002cxy.2_RNA|GLYR1_uc002cxz.1_Missense_Mutation_p.A137T|GLYR1_uc002cya.2_Missense_Mutation_p.A206T|GLYR1_uc010uxv.1_Missense_Mutation_p.A125T	NM_032569	NP_115958	Q49A26	GLYR1_HUMAN	cytokine-like nuclear factor n-pac	206					pentose-phosphate shunt	nucleus	coenzyme binding|DNA binding|methylated histone residue binding|phosphogluconate dehydrogenase (decarboxylating) activity				0						ACCTCGCTTGCGGTTGGCTGC	0.542													25	105					0	0	0.002836	0	0	
PPL	5493	broad.mit.edu	37	16	4933784	4933784	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:4933784C>T	uc002cyd.1	-	22	4962	c.4872G>A	c.(4870-4872)AGG>AGA	p.R1624R		NM_002705	NP_002696	O60437	PEPL_HUMAN	periplakin	1624	Potential.				keratinization	cytoskeleton|desmosome|mitochondrion|nucleus	protein binding|structural constituent of cytoskeleton			ovary(4)|central_nervous_system(1)|skin(1)	6						CCTTGGAGAGCCTCTTGAGGT	0.627													14	44					0	0	0.001855	0	0	
USP7	7874	broad.mit.edu	37	16	8994445	8994445	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:8994445C>T	uc002czl.2	-	21	2450	c.2251G>A	c.(2251-2253)GTG>ATG	p.V751M	USP7_uc010uyk.1_Missense_Mutation_p.V652M|USP7_uc002czj.2_RNA|USP7_uc010uyj.1_Missense_Mutation_p.V652M|USP7_uc002czk.2_Missense_Mutation_p.V735M	NM_003470	NP_003461	Q93009	UBP7_HUMAN	ubiquitin specific peptidase 7	751	Interaction with ICP0/VMW110.				interspecies interaction between organisms|multicellular organismal development|protein deubiquitination|regulation of sequence-specific DNA binding transcription factor activity|ubiquitin-dependent protein catabolic process	cytoplasm|PML body	cysteine-type endopeptidase activity|p53 binding|protein C-terminus binding|transcription factor binding|ubiquitin protein ligase binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)	3						TCAAGAGACACGTCATAGTCC	0.343													27	59					0	0	0.007291	0	0	
ATF7IP2	80063	broad.mit.edu	37	16	10524906	10524906	+	Silent	SNP	C	T	T	rs114568129	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:10524906C>T	uc002czu.2	+	3	656	c.429C>T	c.(427-429)AAC>AAT	p.N143N	ATF7IP2_uc002czv.2_Silent_p.N143N|ATF7IP2_uc010uyo.1_RNA|ATF7IP2_uc010uyp.1_Intron|ATF7IP2_uc002czw.2_Silent_p.N143N|ATF7IP2_uc010uyq.1_RNA	NM_024997	NP_079273	Q5U623	MCAF2_HUMAN	activating transcription factor 7 interacting	143					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0						CTTCTGAAAACGATTCTGAGC	0.438													28	87					0	0	0.007291	0	0	
CIITA	4261	broad.mit.edu	37	16	11001033	11001033	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:11001033G>A	uc002dai.3	+	11	1817	c.1684G>A	c.(1684-1686)GCC>ACC	p.A562T	CIITA_uc002daj.3_Missense_Mutation_p.A563T|CIITA_uc002dak.3_Intron|CIITA_uc002dag.2_Missense_Mutation_p.A562T|CIITA_uc002dah.2_Missense_Mutation_p.A514T|CIITA_uc010bup.1_Intron	NM_000246	NP_000237	P33076	C2TA_HUMAN	class II transactivator	562	NACHT.				interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|response to antibiotic|transcription, DNA-dependent	nucleus	activating transcription factor binding|ATP binding|protein C-terminus binding|protein complex binding|transcription coactivator activity|transcription regulatory region DNA binding			central_nervous_system(1)	1						CAAGGCCGACGCCCTATTTGA	0.637			T	FLJ27352|CD274|CD273|RALGDS|RUNDC2A|C16orf75	PMBL|Hodgkin Lymphona|								5	17					0	0	0.000602	0	0	
PRM3	58531	broad.mit.edu	37	16	11367303	11367303	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:11367303G>A	uc002dat.1	-	1	150	c.150C>T	c.(148-150)GGC>GGT	p.G50G	C16orf75_uc002daq.1_Intron	NM_021247	NP_067070	Q9NNZ6	PRM3_HUMAN	protamine 3	50					cell differentiation|chromosome condensation|multicellular organismal development|spermatogenesis	nucleosome|nucleus	DNA binding				0						cctcttcctcGCCCGCTGATG	0.438													3	3					0	0	0.004672	0	0	
TXNDC11	51061	broad.mit.edu	37	16	11815525	11815525	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:11815525G>T	uc010buu.1	-	5	763	c.701C>A	c.(700-702)CCT>CAT	p.P234H	TXNDC11_uc002dbg.1_Missense_Mutation_p.P234H	NM_015914	NP_056998	Q6PKC3	TXD11_HUMAN	thioredoxin domain containing 11	234					cell redox homeostasis	endoplasmic reticulum membrane|integral to membrane					0						GAGTACTCCAGGCTGCAGGAA	0.403													8	24					2.52707e-12	2.7356e-12	0.006214	1	0	
SNX29	92017	broad.mit.edu	37	16	12220513	12220513	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:12220513G>T	uc002dby.3	+	5	327	c.271G>T	c.(271-273)GCC>TCC	p.A91S	SNX29_uc010uyx.1_Missense_Mutation_p.A118S	NM_001080530	NP_001073999	Q8TEQ0	SNX29_HUMAN	sorting nexin 29	91	Potential.				cell communication		phosphatidylinositol binding			ovary(1)	1						GGCCACTGTGGCCATGATGAA	0.488													4	43					0.000602214	0.000627828	0.000602	1	0	
SNX29	92017	broad.mit.edu	37	16	12618607	12618607	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:12618607C>T	uc002dby.3	+	13	1128	c.1072C>T	c.(1072-1074)CGC>TGC	p.R358C		NM_001080530	NP_001073999	Q8TEQ0	SNX29_HUMAN	sorting nexin 29	358	PX.				cell communication		phosphatidylinositol binding			ovary(1)	1						GAATTACCTGCGCAGCGTCAT	0.522													10	39					0	0	0.006214	0	0	
PARN	5073	broad.mit.edu	37	16	14576504	14576504	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:14576504C>T	uc010uzd.1	-	22	1803	c.1661G>A	c.(1660-1662)CGC>CAC	p.R554H	PARN_uc010uzc.1_Missense_Mutation_p.R493H|PARN_uc010uze.1_Missense_Mutation_p.R508H|PARN_uc010uzf.1_Missense_Mutation_p.R379H	NM_002582	NP_002573	O95453	PARN_HUMAN	poly(A)-specific ribonuclease (deadenylation	554					female gamete generation|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|RNA modification	cytosol|nucleolus	metal ion binding|mRNA 3'-UTR binding|nucleotide binding|poly(A)-specific ribonuclease activity|protein binding			ovary(2)	2						CCTATTGTTGCGGTAATAGTG	0.428													25	66					0	0	0.002096	0	0	
PARN	5073	broad.mit.edu	37	16	14687198	14687198	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:14687198A>G	uc010uzd.1	-	13	1020	c.878T>C	c.(877-879)GTC>GCC	p.V293A	PARN_uc010uzc.1_Missense_Mutation_p.V232A|PARN_uc010uze.1_Missense_Mutation_p.V247A|PARN_uc010uzf.1_Missense_Mutation_p.V118A	NM_002582	NP_002573	O95453	PARN_HUMAN	poly(A)-specific ribonuclease (deadenylation	293					female gamete generation|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|RNA modification	cytosol|nucleolus	metal ion binding|mRNA 3'-UTR binding|nucleotide binding|poly(A)-specific ribonuclease activity|protein binding			ovary(2)	2						TGTGTGCATGACGTCCAAGAG	0.373													4	75					0	0	0.000602	0	0	
KIAA0430	9665	broad.mit.edu	37	16	15714321	15714321	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:15714321T>C	uc002ddr.2	-	13	2900	c.2707A>G	c.(2707-2709)ATC>GTC	p.I903V	KIAA0430_uc002ddq.2_Missense_Mutation_p.I737V|KIAA0430_uc010uzv.1_Missense_Mutation_p.I899V|KIAA0430_uc010uzw.1_Missense_Mutation_p.I902V	NM_014647	NP_055462	Q9Y4F3	LKAP_HUMAN	limkain b1	902						peroxisome	nucleotide binding|RNA binding				0						TTTTCATAGATATCTGTAAAT	0.313													16	44					0	0	0.010504	0	0	
ABCC1	4363	broad.mit.edu	37	16	16208889	16208889	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:16208889G>A	uc010bvi.2	+	23	3521	c.3346G>A	c.(3346-3348)GCC>ACC	p.A1116T	ABCC1_uc010bvj.2_Missense_Mutation_p.A1057T|ABCC1_uc010bvk.2_Missense_Mutation_p.A1060T|ABCC1_uc010bvl.2_Missense_Mutation_p.A1116T|ABCC1_uc010bvm.2_Missense_Mutation_p.A1001T|ABCC1_uc002del.3_Missense_Mutation_p.A1010T	NM_004996	NP_004987	P33527	MRP1_HUMAN	ATP-binding cassette, sub-family C, member 1	1116	Helical; Name=15.|ABC transmembrane type-1 2.				hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process|response to drug	Golgi apparatus|integral to plasma membrane|membrane fraction|nucleus	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)	4					Daunorubicin(DB00694)|Glibenclamide(DB01016)|Probenecid(DB01032)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	GCCCATCGCCGCCATCATCAT	0.547													9	24					0	0	0.006214	0	0	
XYLT1	64131	broad.mit.edu	37	16	17294440	17294440	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:17294440C>T	uc002dfa.2	-	4	1070	c.985G>A	c.(985-987)GCC>ACC	p.A329T		NM_022166	NP_071449	Q86Y38	XYLT1_HUMAN	xylosyltransferase I	329	Lumenal (Potential).				glycosaminoglycan biosynthetic process	endoplasmic reticulum membrane|extracellular region|Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity|protein xylosyltransferase activity			ovary(4)	4						AGGACAAAGGCGATTCTGACC	0.552													9	113					0	0	0.006214	0	0	
TMC5	79838	broad.mit.edu	37	16	19483429	19483429	+	Missense_Mutation	SNP	G	A	A	rs141710338	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:19483429G>A	uc002dgc.3	+	11	2551	c.1802G>A	c.(1801-1803)CGT>CAT	p.R601H	TMC5_uc010vaq.1_Intron|TMC5_uc002dgb.3_Missense_Mutation_p.R601H|TMC5_uc010var.1_Missense_Mutation_p.R601H|TMC5_uc002dgd.1_Missense_Mutation_p.R355H|TMC5_uc002dge.3_Missense_Mutation_p.R355H|TMC5_uc002dgf.3_Missense_Mutation_p.R284H|TMC5_uc002dgg.3_Missense_Mutation_p.R242H	NM_001105248	NP_001098718	Q6UXY8	TMC5_HUMAN	transmembrane channel-like 5 isoform a	601	Cytoplasmic (Potential).					integral to membrane				skin(1)	1						TCAGAGCTCCGTCAGGAGAAT	0.358													43	89					0	0	0.003214	0	0	
GPRC5B	51704	broad.mit.edu	37	16	19884011	19884011	+	Missense_Mutation	SNP	C	T	T	rs137970804	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:19884011C>T	uc002dgt.2	-	2	265	c.157G>A	c.(157-159)GCC>ACC	p.A53T	GPRC5B_uc010vav.1_Missense_Mutation_p.A79T	NM_016235	NP_057319	Q9NZH0	GPC5B_HUMAN	G protein-coupled receptor, family C, group 5,	53	Extracellular (Potential).									lung(1)|breast(1)|skin(1)	3						CCCCAGATGGCGTCCAGGTCG	0.647													7	18					0	0	0.001984	0	0	
PDILT	204474	broad.mit.edu	37	16	20410510	20410510	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:20410510T>C	uc002dhc.1	-	2	336	c.113A>G	c.(112-114)CAC>CGC	p.H38R		NM_174924	NP_777584	Q8N807	PDILT_HUMAN	protein disulfide isomerase-like, testis	38					cell differentiation|cell redox homeostasis|multicellular organismal development|spermatogenesis	endoplasmic reticulum	isomerase activity			large_intestine(1)	1						CTCCAGGATGTGCACAGGCTT	0.597													4	92					0	0	0.000978	0	0	
DNAH3	55567	broad.mit.edu	37	16	21033308	21033308	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:21033308A>G	uc010vbe.1	-	40	5761	c.5761T>C	c.(5761-5763)TAC>CAC	p.Y1921H		NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	1921					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		AGAGAAGAGTACAGTCTCATC	0.418													14	40					0	0	0.002450	0	0	
EEF2K	29904	broad.mit.edu	37	16	22260086	22260086	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:22260086G>A	uc002dki.2	+	4	843	c.358G>A	c.(358-360)GTC>ATC	p.V120I	EEF2K_uc002dkh.2_RNA	NM_013302	NP_037434	O00418	EF2K_HUMAN	elongation factor-2 kinase	120	Alpha-type protein kinase.				insulin receptor signaling pathway|translational elongation	cytosol	ATP binding|calcium ion binding|calmodulin binding|elongation factor-2 kinase activity|translation factor activity, nucleic acid binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(48;0.0223)		GTACAACGCCGTCACCGGGGA	0.572													6	37					0	0	0.001168	0	0	
USP31	57478	broad.mit.edu	37	16	23079707	23079707	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:23079707C>T	uc002dll.2	-	16	3719	c.3719G>A	c.(3718-3720)CGC>CAC	p.R1240H	USP31_uc002dlk.2_Missense_Mutation_p.R512H|USP31_uc010vca.1_Missense_Mutation_p.R543H|USP31_uc010bxm.2_Missense_Mutation_p.R528H	NM_020718	NP_065769	Q70CQ4	UBP31_HUMAN	ubiquitin specific peptidase 31	1240					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(3)|lung(3)|breast(2)|pancreas(1)|skin(1)	10				GBM - Glioblastoma multiforme(48;0.0187)		ATCCGTCGAGCGCCGGGTTTC	0.537													39	133					0	0	0.003610	0	0	
SCNN1G	6340	broad.mit.edu	37	16	23197805	23197805	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:23197805C>T	uc002dlm.1	+	2	352	c.213C>T	c.(211-213)TGC>TGT	p.C71C		NM_001039	NP_001030	P51170	SCNNG_HUMAN	sodium channel, nonvoltage-gated 1, gamma	71	Helical; (By similarity).				excretion|sensory perception of taste	apical plasma membrane|integral to plasma membrane	ligand-gated sodium channel activity|WW domain binding			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)	6				GBM - Glioblastoma multiforme(48;0.0366)	Amiloride(DB00594)|Triamterene(DB00384)	TCTGGCAGTGCGCCCTCCTCG	0.597													5	42					0	0	0.000602	0	0	
SCNN1B	6338	broad.mit.edu	37	16	23364329	23364329	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:23364329C>T	uc002dln.2	+	3	695	c.519C>T	c.(517-519)GGC>GGT	p.G173G		NM_000336	NP_000327	P51168	SCNNB_HUMAN	sodium channel, nonvoltage-gated 1, beta	173	Extracellular (By similarity).				excretion|sensory perception of taste	apical plasma membrane	ligand-gated sodium channel activity|WW domain binding			ovary(3)|breast(2)|large_intestine(1)|pancreas(1)	7				GBM - Glioblastoma multiforme(48;0.0465)	Amiloride(DB00594)|Triamterene(DB00384)	ACCACAATGGCTTAACAAGCA	0.502													27	104					0	0	0.002445	0	0	
COG7	91949	broad.mit.edu	37	16	23421653	23421653	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:23421653G>A	uc002dlo.2	-	11	1626	c.1438C>T	c.(1438-1440)CGG>TGG	p.R480W		NM_153603	NP_705831	P83436	COG7_HUMAN	component of oligomeric golgi complex 7	480					intracellular protein transport|protein glycosylation|protein localization in Golgi apparatus|protein stabilization|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|Golgi transport complex	protein binding				0				GBM - Glioblastoma multiforme(48;0.0401)		CCACAATGCCGCAAAAGCTCT	0.478													4	38					0	0	0.009096	0	0	
PRKCB	5579	broad.mit.edu	37	16	23847557	23847557	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:23847557G>A	uc002dmd.2	+	1	258	c.61G>A	c.(61-63)GCC>ACC	p.A21T	PRKCB_uc002dme.2_Missense_Mutation_p.A21T	NM_212535	NP_997700	P05771	KPCB_HUMAN	protein kinase C, beta isoform 1	21					apoptosis|B cell activation|B cell receptor signaling pathway|intracellular signal transduction|lipoprotein transport|platelet activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|synaptic transmission|transcription, DNA-dependent	cytosol|nucleus|plasma membrane	androgen receptor binding|ATP binding|chromatin binding|histone binding|histone kinase activity (H3-T6 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein kinase C activity|protein kinase C binding|zinc ion binding			ovary(3)|central_nervous_system(3)|lung(2)|large_intestine(1)	9					Vitamin E(DB00163)	CGTGCGCTTCGCCCGCAAAGG	0.652													13	13					0	0	0.001855	0	0	
RBBP6	5930	broad.mit.edu	37	16	24567768	24567768	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:24567768C>T	uc002dmh.2	+	7	1714	c.674C>T	c.(673-675)GCA>GTA	p.A225V	RBBP6_uc010vcb.1_Missense_Mutation_p.A92V|RBBP6_uc002dmi.2_Missense_Mutation_p.A225V|RBBP6_uc010bxr.2_Missense_Mutation_p.A225V|RBBP6_uc002dmk.2_Missense_Mutation_p.A92V	NM_006910	NP_008841	Q7Z6E9	RBBP6_HUMAN	retinoblastoma-binding protein 6 isoform 1	225					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	chromosome|nucleolus|ubiquitin ligase complex	nucleic acid binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|pancreas(1)	4				GBM - Glioblastoma multiforme(48;0.0518)		ACTATAGATGCGTAAGTATGC	0.398													6	62					0	0	0.001984	0	0	
RBBP6	5930	broad.mit.edu	37	16	24583525	24583525	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:24583525G>A	uc002dmh.2	+	18	6178	c.5138G>A	c.(5137-5139)AGC>AAC	p.S1713N	RBBP6_uc002dmi.2_Missense_Mutation_p.S1679N|RBBP6_uc010bxr.2_Missense_Mutation_p.S873N|RBBP6_uc002dmk.2_Missense_Mutation_p.S1546N	NM_006910	NP_008841	Q7Z6E9	RBBP6_HUMAN	retinoblastoma-binding protein 6 isoform 1	1713					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	chromosome|nucleolus|ubiquitin ligase complex	nucleic acid binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|pancreas(1)	4				GBM - Glioblastoma multiforme(48;0.0518)		CAGACCCGAAGCCACAGTAGC	0.358													15	23					0	0	0.007413	0	0	
ARHGAP17	55114	broad.mit.edu	37	16	24942549	24942549	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:24942549C>T	uc002dnb.2	-	19	2164	c.2071G>A	c.(2071-2073)GCC>ACC	p.A691T	ARHGAP17_uc002dmx.2_5'UTR|ARHGAP17_uc002dmw.2_5'UTR|ARHGAP17_uc002dmy.2_Missense_Mutation_p.A136T|ARHGAP17_uc002dmz.2_Missense_Mutation_p.A215T|ARHGAP17_uc002dna.2_Missense_Mutation_p.A418T|ARHGAP17_uc002dnc.2_Missense_Mutation_p.A613T|ARHGAP17_uc010vcf.1_Missense_Mutation_p.A434T|ARHGAP17_uc002dne.1_5'UTR	NM_001006634	NP_001006635	Q68EM7	RHG17_HUMAN	nadrin isoform 1	691	Pro-rich.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|tight junction	GTPase activator activity|SH3 domain binding				0				GBM - Glioblastoma multiforme(48;0.0407)		TGGGAGGGGGCGGAGGGCTGG	0.672													5	31					0	0	0.000602	0	0	
IL4R	3566	broad.mit.edu	37	16	27370284	27370284	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:27370284G>A	uc002don.2	+	9	1060	c.818G>A	c.(817-819)CGC>CAC	p.R273H	IL4R_uc002dop.3_Missense_Mutation_p.R258H|IL4R_uc010bxy.2_Missense_Mutation_p.R273H|IL4R_uc002doo.2_Missense_Mutation_p.R113H	NM_000418	NP_000409	P24394	IL4RA_HUMAN	interleukin 4 receptor alpha chain isoform a	273	Cytoplasmic (Potential).				immune response|production of molecular mediator involved in inflammatory response	integral to plasma membrane	identical protein binding|interleukin-4 receptor activity|receptor signaling protein activity			ovary(1)|skin(1)	2						GCCCGCAGCCGCCTCGTGGCT	0.483													9	29					0	0	0.001368	0	0	
GTF3C1	2975	broad.mit.edu	37	16	27481652	27481652	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:27481652G>A	uc002dov.1	-	31	4631	c.4591C>T	c.(4591-4593)CGG>TGG	p.R1531W	GTF3C1_uc002dou.2_Missense_Mutation_p.R1531W	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	1531						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						CCGGCAGCCCGCATTCTGTCC	0.512													17	135					0	0	0.006122	0	0	
KIAA0556	23247	broad.mit.edu	37	16	27709701	27709701	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:27709701C>T	uc002dow.2	+	9	1017	c.993C>T	c.(991-993)TGC>TGT	p.C331C	KIAA0556_uc002dox.1_Silent_p.C239C	NM_015202	NP_056017	O60303	K0556_HUMAN	hypothetical protein LOC23247	331										ovary(4)|large_intestine(2)|upper_aerodigestive_tract(1)|skin(1)	8						AAACTCTTTGCGAGGCTGAGT	0.587													22	78					0	0	0.003954	0	0	
SEZ6L2	26470	broad.mit.edu	37	16	29889661	29889661	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:29889661G>A	uc002duq.3	-	10	1899	c.1659C>T	c.(1657-1659)TGC>TGT	p.C553C	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|SEZ6L2_uc002dup.3_Silent_p.C483C|SEZ6L2_uc002dur.3_Silent_p.C483C|SEZ6L2_uc002dus.3_Silent_p.C439C|SEZ6L2_uc010vec.1_Silent_p.C553C|SEZ6L2_uc010ved.1_Silent_p.C509C	NM_201575	NP_963869	Q6UXD5	SE6L2_HUMAN	seizure related 6 homolog (mouse)-like 2 isoform	553	CUB 3.|Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane|plasma membrane				ovary(1)|skin(1)	2						CGCCCCACACGCAGTCTTGGC	0.607													16	41					0	0	0.004990	0	0	
TBX6	6911	broad.mit.edu	37	16	30100018	30100018	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:30100018G>T	uc010veh.1	-	5	824	c.764C>A	c.(763-765)CCA>CAA	p.P255Q	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|TBX6_uc002dwk.1_Missense_Mutation_p.P255Q	NM_004608	NP_004599	O95947	TBX6_HUMAN	T-box 6	255	T-box.				anatomical structure morphogenesis|mesoderm development|multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2						ACTCACCTGTGGGTTCTGGTA	0.617													6	93					5.9392e-07	6.31025e-07	0.001168	1	0	
ZNF764	92595	broad.mit.edu	37	16	30569345	30569345	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:30569345G>A	uc002dyq.2	-	1	240	c.159C>T	c.(157-159)GAC>GAT	p.D53D	ZNF764_uc002dyr.1_Silent_p.D53D	NM_033410	NP_219363	Q96H86	ZN764_HUMAN	zinc finger protein 764	53	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CCCGCATCACGTCCCGGTACA	0.726													5	6					0	0	0.001984	0	0	
SRCAP	10847	broad.mit.edu	37	16	30732759	30732759	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:30732759G>A	uc002dze.1	+	21	3888	c.3503G>A	c.(3502-3504)CGC>CAC	p.R1168H	SRCAP_uc002dzf.2_Intron|SRCAP_uc002dzg.1_Missense_Mutation_p.R1025H|SRCAP_uc010bzz.1_Missense_Mutation_p.R738H	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	1168	Pro-rich.				interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			GCACCACAGCGCCTCATTCTA	0.597													4	52					0	0	0.009096	0	0	
PHKG2	5261	broad.mit.edu	37	16	30768236	30768236	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:30768236C>T	uc002dzk.1	+	10	1132	c.1039C>T	c.(1039-1041)CGG>TGG	p.R347W	PHKG2_uc002dzi.1_Missense_Mutation_p.R351W|PHKG2_uc002dzj.1_Missense_Mutation_p.R245W	NM_000294	NP_000285	P15735	PHKG2_HUMAN	phosphorylase kinase, gamma 2 (testis)	347	Calmodulin-binding (domain-C) (By similarity).				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	ATP binding|calmodulin binding|phosphorylase kinase activity			ovary(1)	1			Colorectal(24;0.198)			GCGGTCAGTGCGGCACCTCAT	0.622													5	94					0	0	0.001168	0	0	
RNF40	9810	broad.mit.edu	37	16	30780692	30780692	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:30780692C>T	uc002dzq.2	+	16	2556	c.2433C>T	c.(2431-2433)GGC>GGT	p.G811G	RNF40_uc010caa.2_Silent_p.G811G|RNF40_uc010cab.2_Silent_p.G711G|RNF40_uc010vfa.1_Silent_p.G143G|RNF40_uc002dzr.2_Silent_p.G811G|RNF40_uc010vfb.1_Silent_p.G503G|RNF40_uc010vfc.1_Silent_p.G143G	NM_014771	NP_055586	O75150	BRE1B_HUMAN	ring finger protein 40	811	Potential.				histone H2B ubiquitination|histone monoubiquitination|ubiquitin-dependent protein catabolic process	nucleus|synaptosome|ubiquitin ligase complex	protein homodimerization activity|ubiquitin protein ligase binding|zinc ion binding			central_nervous_system(1)	1			Colorectal(24;0.198)			ATGAGTTGGGCGAGCAGGTCC	0.582													6	49					0	0	0.001168	0	0	
ZNF629	23361	broad.mit.edu	37	16	30794300	30794300	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:30794300C>T	uc002dzs.1	-	3	1557	c.1349G>A	c.(1348-1350)CGC>CAC	p.R450H		NM_001080417	NP_001073886	Q9UEG4	ZN629_HUMAN	zinc finger protein 629	450	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			Colorectal(24;0.198)			GGTGTGGATGCGCTGGTGGCG	0.637													7	76					0	0	0.004482	0	0	
ZNF629	23361	broad.mit.edu	37	16	30794364	30794364	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:30794364G>A	uc002dzs.1	-	3	1493	c.1285C>T	c.(1285-1287)CCC>TCC	p.P429S		NM_001080417	NP_001073886	Q9UEG4	ZN629_HUMAN	zinc finger protein 629	429					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			Colorectal(24;0.198)			CAGATGTAGGGCCGCTCGCCG	0.632													8	31					0	0	0.003080	0	0	
SETD1A	9739	broad.mit.edu	37	16	30976445	30976445	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:30976445G>A	uc002ead.1	+	7	2068	c.1382G>A	c.(1381-1383)CGC>CAC	p.R461H		NM_014712	NP_055527	O15047	SET1A_HUMAN	SET domain containing 1A	461	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nuclear speck|Set1C/COMPASS complex	histone-lysine N-methyltransferase activity|nucleotide binding|protein binding|RNA binding			ovary(2)|skin(1)	3						ACTTCCCCCCGCCCAGCCTCC	0.687													4	12					0	0	0.009096	0	0	
ZNF668	79759	broad.mit.edu	37	16	31075337	31075337	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:31075337G>T	uc010caf.2	-	2	801	c.444C>A	c.(442-444)GCC>GCA	p.A148A	ZNF668_uc002eao.2_Silent_p.A148A|ZNF668_uc010cag.1_Silent_p.A148A	NM_024706	NP_078982	Q96K58	ZN668_HUMAN	zinc finger protein 668	148	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(4)	4						GCGCGCCATAGGCCTTCGGGC	0.687													5	2					5.9392e-07	6.31025e-07	0.001168	1	0	
UBE2MP1	606551	broad.mit.edu	37	16	34404290	34404290	+	RNA	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:34404290G>A	uc002edv.1	-	1		c.473C>T				NR_002837				full-length cDNA clone CS0DH003YB23 of T cells (Jurkat cell line) of Homo sapiens (human).												0						GGCAGACGTTGCCCTCGATTT	0.498													8	31					0	0	0.006214	0	0	
VPS35	55737	broad.mit.edu	37	16	46712899	46712899	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:46712899G>A	uc002eef.3	-	6	775	c.676C>T	c.(676-678)CGC>TGC	p.R226C	VPS35_uc002eed.2_Missense_Mutation_p.R47C|VPS35_uc002eee.2_Missense_Mutation_p.R187C	NM_018206	NP_060676	Q96QK1	VPS35_HUMAN	vacuolar protein sorting 35	226					protein transport|retrograde transport, endosome to Golgi	cytosol|endosome|membrane	protein binding				0		all_cancers(37;7.65e-05)|all_epithelial(9;0.000154)|all_lung(18;0.00585)|Lung NSC(13;0.0496)|Breast(268;0.116)				TGACTGAGGCGCACCAAATTT	0.393													46	125					0	0	0.003610	0	0	
NETO2	81831	broad.mit.edu	37	16	47117246	47117246	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:47117246T>C	uc002eer.1	-	9	1849	c.1464A>G	c.(1462-1464)GGA>GGG	p.G488G	NETO2_uc002eeq.1_Silent_p.G223G|NETO2_uc010vgf.1_Silent_p.G345G	NM_018092	NP_060562	Q8NC67	NETO2_HUMAN	neuropilin- and tolloid-like protein 2	488	Cytoplasmic (Potential).					integral to membrane	receptor activity				0		all_cancers(37;0.00114)|all_lung(18;0.00432)|Lung NSC(13;0.0384)|Breast(268;0.174)				GGCACTCATGTCCCTGTTTGA	0.448										HNSCC(25;0.065)			36	101					0	0	0.004878	0	0	
ITFG1	81533	broad.mit.edu	37	16	47294547	47294547	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:47294547G>A	uc002eet.2	-	11	1192	c.1130C>T	c.(1129-1131)GCG>GTG	p.A377V	ITFG1_uc010vgg.1_Missense_Mutation_p.A122V|ITFG1_uc010vgh.1_Missense_Mutation_p.A264V	NM_030790	NP_110417	Q8TB96	TIP_HUMAN	integrin alpha FG-GAP repeat containing 1	377						extracellular region|integral to membrane				ovary(1)|central_nervous_system(1)	2		all_cancers(37;0.0613)|all_lung(18;0.0543)|Lung NSC(13;0.227)				CATTCGACGCGCCTCTTCACA	0.433													15	63					0	0	0.003163	0	0	
ABCC12	94160	broad.mit.edu	37	16	48134814	48134814	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:48134814C>T	uc002efc.1	-	21	3353	c.3007G>A	c.(3007-3009)GCC>ACC	p.A1003T	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_RNA	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	1003	ABC transmembrane type-1 2.					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				TTGCCATAGGCGTGAATGATG	0.607													14	28					0	0	0.003163	0	0	
ABCC11	85320	broad.mit.edu	37	16	48250120	48250120	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:48250120C>T	uc002eff.1	-	6	1206	c.856G>A	c.(856-858)GCA>ACA	p.A286T	ABCC11_uc002efg.1_Missense_Mutation_p.A286T|ABCC11_uc002efh.1_Missense_Mutation_p.A286T|ABCC11_uc010vgk.1_5'Flank|ABCC11_uc010vgl.1_Missense_Mutation_p.A286T	NM_033151	NP_149163	Q96J66	ABCCB_HUMAN	ATP-binding cassette, sub-family C, member 11	286	ABC transmembrane type-1 1.|Helical; (Potential).					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(3)|skin(2)|central_nervous_system(1)	6		all_cancers(37;0.127)|all_lung(18;0.132)|Breast(268;0.166)				ACCAGCGATGCGCAGGTGATC	0.473									Cerumen_Type				21	187					0	0	0.002299	0	0	
LONP2	83752	broad.mit.edu	37	16	48381516	48381516	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:48381516C>T	uc002efi.1	+	13	2126	c.2037C>T	c.(2035-2037)GGC>GGT	p.G679G	LONP2_uc010vgm.1_RNA|LONP2_uc002efj.1_Silent_p.G635G	NM_031490	NP_113678	Q86WA8	LONP2_HUMAN	peroxisomal LON protease-like	679					misfolded or incompletely synthesized protein catabolic process|protein targeting to peroxisome|signal peptide processing	nucleoid|peroxisomal matrix	ATP binding|ATP-dependent peptidase activity|enzyme binding|sequence-specific DNA binding|serine-type endopeptidase activity				0						GAATGGATGGCGAGGGCCAGT	0.567													6	60					0	0	0.001984	0	0	
CBLN1	869	broad.mit.edu	37	16	49315138	49315138	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:49315138C>T	uc002efq.2	-	1	578	c.239G>A	c.(238-240)CGC>CAC	p.R80H		NM_004352	NP_004343	P23435	CBLN1_HUMAN	cerebellin 1 precursor	80	C1q.|Necessary for interaction with CBLN3, and homotrimerization (By similarity).				nervous system development|synaptic transmission	cell junction|extracellular region|synapse					0		all_cancers(37;0.0766)|all_lung(18;0.24)				GATCATGGTGCGATTACTCAT	0.607													7	45					0	0	0.004482	0	0	
ADCY7	113	broad.mit.edu	37	16	50342601	50342601	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:50342601G>A	uc002egd.1	+	16	2227	c.1959G>A	c.(1957-1959)ACG>ACA	p.T653T	ADCY7_uc002egc.1_Silent_p.T653T	NM_001114	NP_001105	P51828	ADCY7_HUMAN	adenylate cyclase 7	653					activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to ethanol|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of cAMP biosynthetic process|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			skin(1)	1		all_cancers(37;0.0127)		GBM - Glioblastoma multiforme(240;0.195)	Bromocriptine(DB01200)	CTCGGGGGACGCTCTGCACTA	0.652													7	22					0	0	0.003080	0	0	
BRD7	29117	broad.mit.edu	37	16	50388806	50388806	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:50388806G>A	uc002egf.1	-	4	353	c.286C>T	c.(286-288)CGG>TGG	p.R96W	BRD7_uc002ege.1_Missense_Mutation_p.R96W	NM_013263	NP_037395	Q9NPI1	BRD7_HUMAN	bromodomain containing 7	96	Nuclear localization signal.			R -> Q (in Ref. 1; AAF19526).	cell cycle|negative regulation of cell proliferation|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of histone acetylation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|nucleus	histone acetyl-lysine binding|p53 binding|transcription coactivator activity|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding				0		all_cancers(37;0.0127)				TTCTCCACCCGGTCTCGATCT	0.398													9	132					0	0	0.004482	0	0	
NKD1	85407	broad.mit.edu	37	16	50659407	50659407	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:50659407C>T	uc002egg.1	+	6	602	c.378C>T	c.(376-378)TGC>TGT	p.C126C		NM_033119	NP_149110	Q969G9	NKD1_HUMAN	naked cuticle homolog 1	126	Interaction with DVL1, DVL2 and DVL3 (By similarity).				Wnt receptor signaling pathway	cytoplasm|plasma membrane	calcium ion binding|protein binding				0		all_cancers(37;0.229)		GBM - Glioblastoma multiforme(240;0.243)		AGCTCCAGTGCGACGTGTCCA	0.612													9	15					0	0	0.006214	0	0	
NOD2	64127	broad.mit.edu	37	16	50763760	50763760	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:50763760G>T	uc002egm.1	+	11	3103	c.2998G>T	c.(2998-3000)GCA>TCA	p.A1000S	NOD2_uc010vgq.1_Missense_Mutation_p.A45S	NM_022162	NP_071445	Q9HC29	NOD2_HUMAN	nucleotide-binding oligomerization domain	1000	LRR 8.				activation of MAPK activity involved in innate immune response|cytokine production involved in immune response|detection of bacterium|detection of muramyl dipeptide|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of macrophage apoptosis|nucleotide-binding oligomerization domain containing 2 signaling pathway|positive regulation of B cell activation|positive regulation of dendritic cell antigen processing and presentation|positive regulation of epithelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of gamma-delta T cell activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-1 beta secretion|positive regulation of interleukin-10 production|positive regulation of interleukin-17 production|positive regulation of interleukin-6 production|positive regulation of JNK cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of Notch signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of prostaglandin-E synthase activity|positive regulation of prostaglandin-endoperoxide synthase activity|positive regulation of stress-activated MAPK cascade|positive regulation of tumor necrosis factor production|positive regulation of type 2 immune response|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cell surface|cytosol|plasma membrane|vesicle	ATP binding|CARD domain binding|muramyl dipeptide binding|protein kinase binding			ovary(3)|skin(1)	4		all_cancers(37;0.0156)				CTACCTAGGGGCAGAAGCCCT	0.378													10	56					5.50884e-06	5.81984e-06	0.001368	1	0	
CHD9	80205	broad.mit.edu	37	16	53331022	53331022	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:53331022G>A	uc002ehb.2	+	29	5829	c.5665G>A	c.(5665-5667)GCA>ACA	p.A1889T	CHD9_uc002egy.2_Missense_Mutation_p.A1889T|CHD9_uc002ehc.2_Missense_Mutation_p.A1889T|CHD9_uc002ehf.2_Missense_Mutation_p.A1003T|CHD9_uc010cbw.2_Missense_Mutation_p.A257T	NM_025134	NP_079410	Q3L8U1	CHD9_HUMAN	chromodomain helicase DNA binding protein 9	1889					cellular lipid metabolic process|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleoplasm	ATP binding|DNA binding|helicase activity|protein binding			lung(2)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|kidney(1)	7		all_cancers(37;0.0212)				ATATTTGTACGCATTCATGTC	0.378													13	115					0	0	0.001368	0	0	
CHD9	80205	broad.mit.edu	37	16	53358035	53358035	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:53358035C>T	uc002ehb.2	+	38	8086	c.7922C>T	c.(7921-7923)GCC>GTC	p.A2641V	CHD9_uc002egy.2_Missense_Mutation_p.A2625V|CHD9_uc002ehc.2_Missense_Mutation_p.A2626V|CHD9_uc002ehf.2_Missense_Mutation_p.A1739V|CHD9_uc010cbw.2_Missense_Mutation_p.A707V	NM_025134	NP_079410	Q3L8U1	CHD9_HUMAN	chromodomain helicase DNA binding protein 9	2641	Poly-Ala.				cellular lipid metabolic process|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleoplasm	ATP binding|DNA binding|helicase activity|protein binding	p.K2641T(1)		lung(2)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|kidney(1)	7		all_cancers(37;0.0212)				ATTGCAAAGGCCACAGCAGCA	0.512													17	66					0	0	0.002780	0	0	
RPGRIP1L	23322	broad.mit.edu	37	16	53675004	53675004	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:53675004G>A	uc002ehp.2	-	19	2963	c.2899C>T	c.(2899-2901)CGT>TGT	p.R967C	RPGRIP1L_uc002eho.3_Missense_Mutation_p.R967C|RPGRIP1L_uc010vgy.1_Missense_Mutation_p.R967C|RPGRIP1L_uc010cbx.2_Missense_Mutation_p.R967C|RPGRIP1L_uc010vgz.1_Missense_Mutation_p.R967C	NM_015272	NP_056087	Q68CZ1	FTM_HUMAN	RPGRIP1-like isoform a	967					negative regulation of G-protein coupled receptor protein signaling pathway	cell-cell junction|centrosome|cilium axoneme|microtubule basal body	thromboxane A2 receptor binding			ovary(1)	1		all_cancers(37;0.0973)				GGTGTTAAACGTTGTCTTGGT	0.353													7	28					0	0	0.001984	0	0	
LPCAT2	54947	broad.mit.edu	37	16	55613142	55613142	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:55613142A>G	uc002eie.3	+	13	1617	c.1436A>G	c.(1435-1437)GAC>GGC	p.D479G	LPCAT2_uc002eic.2_Missense_Mutation_p.D209G	NM_017839	NP_060309	Q7L5N7	PCAT2_HUMAN	lysophosphatidylcholine acyltransferase 2	479	Lumenal (Potential).				cellular membrane organization|platelet activating factor biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|Golgi stack|integral to membrane	1-acylglycerophosphocholine O-acyltransferase activity|1-alkylglycerophosphocholine O-acetyltransferase activity|calcium ion binding				0						GCCCAAGGGGACTCAATTTCC	0.473													22	57					0	0	0.002299	0	0	
SLC6A2	6530	broad.mit.edu	37	16	55730216	55730216	+	Silent	SNP	C	T	T	rs149035289		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:55730216C>T	uc002eif.2	+	9	1338	c.1227C>T	c.(1225-1227)TTC>TTT	p.F409F	SLC6A2_uc010ccd.2_Silent_p.F409F|SLC6A2_uc002eig.2_Silent_p.F409F|SLC6A2_uc002eih.2_Silent_p.F409F|SLC6A2_uc002eii.2_Silent_p.F304F|SLC6A2_uc002eij.2_Silent_p.F123F	NM_001043	NP_001034	P23975	SC6A2_HUMAN	solute carrier family 6 member 2	409	Helical; Name=8; (Potential).				synaptic transmission	integral to plasma membrane|membrane fraction	norepinephrine:sodium symporter activity			lung(4)|ovary(2)|pancreas(2)	8				BRCA - Breast invasive adenocarcinoma(181;0.01)|Kidney(780;0.0267)	Amineptine(DB04836)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Atomoxetine(DB00289)|Bethanidine(DB00217)|Bupropion(DB01156)|Clomipramine(DB01242)|Cocaine(DB00907)|Debrisoquin(DB04840)|Desipramine(DB01151)|Diethylpropion(DB00937)|Doxepin(DB01142)|Duloxetine(DB00476)|Ergotamine(DB00696)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Imipramine(DB00458)|Maprotiline(DB00934)|Mazindol(DB00579)|Methylphenidate(DB00422)|Milnacipran(DB04896)|Nefazodone(DB01149)|Norepinephrine(DB00368)|Nortriptyline(DB00540)|Paroxetine(DB00715)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Protriptyline(DB00344)|Reboxetine(DB00234)|Sibutramine(DB01105)|Tramadol(DB00193)|Trazodone(DB00656)|Trimipramine(DB00726)|Venlafaxine(DB00285)	TTGTGTTTTTCGTCATGCTCC	0.542													11	103					0	0	0.001855	0	0	
CES1	1066	broad.mit.edu	37	16	55855375	55855375	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:55855375G>A	uc002eim.2	-	5	703	c.595C>T	c.(595-597)CGC>TGC	p.R199C	CES1_uc002eil.2_Missense_Mutation_p.R200C|CES1_uc002ein.2_Missense_Mutation_p.R199C	NM_001025194	NP_001020365	P23141	EST1_HUMAN	carboxylesterase 1 isoform b precursor	199					response to toxin	endoplasmic reticulum lumen	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.13)|Epithelial(162;0.137)	Aminoglutethimide(DB00357)|Bezafibrate(DB01393)|Cholestyramine(DB01432)|Moexipril(DB00691)	TGGACCCAGCGCAGGGCAGCC	0.587													8	23					0	0	0.003080	0	0	
CES1	1066	broad.mit.edu	37	16	55862794	55862794	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:55862794C>T	uc002eim.2	-	2	250	c.142G>A	c.(142-144)GCC>ACC	p.A48T	CES1_uc002eil.2_Missense_Mutation_p.A49T|CES1_uc002ein.2_Missense_Mutation_p.A48T	NM_001025194	NP_001020365	P23141	EST1_HUMAN	carboxylesterase 1 isoform b precursor	48					response to toxin	endoplasmic reticulum lumen	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.13)|Epithelial(162;0.137)	Aminoglutethimide(DB00357)|Bezafibrate(DB01393)|Cholestyramine(DB01432)|Moexipril(DB00691)	AGGAAAATGGCCACAGGCTGT	0.567													9	45					0	0	0.004482	0	0	
CES7	221223	broad.mit.edu	37	16	55883567	55883567	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:55883567A>G	uc002eip.2	-	11	1541	c.1392T>C	c.(1390-1392)GGT>GGC	p.G464G	CES7_uc002eio.2_Intron|CES7_uc002eiq.2_Silent_p.G225G|CES7_uc002eir.2_Silent_p.G358G	NM_001143685	NP_001137157	Q6NT32	EST5A_HUMAN	carboxylesterase 7 isoform 1	464						extracellular region	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.229)|Epithelial(162;0.231)		TCAGGAAGGCACCACCGAACA	0.542													8	145					0	0	0.003080	0	0	
CES7	221223	broad.mit.edu	37	16	55907786	55907786	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:55907786C>T	uc002eip.2	-	2	386	c.237G>A	c.(235-237)TCG>TCA	p.S79S	CES7_uc002eio.2_Silent_p.S79S|CES7_uc002eiq.2_5'UTR|CES7_uc002eir.2_5'UTR	NM_001143685	NP_001137157	Q6NT32	EST5A_HUMAN	carboxylesterase 7 isoform 1	79						extracellular region	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.229)|Epithelial(162;0.231)		TATCCCAGGGCGATGCAGGCT	0.597													8	21					0	0	0.004482	0	0	
MT1F	4494	broad.mit.edu	37	16	56693075	56693075	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:56693075G>A	uc002ejt.2	+	3	301	c.185G>A	c.(184-186)TGA>TAA	p.*62*		NM_005949	NP_005940	P04733	MT1F_HUMAN	metallothionein 1F	62						cytoplasm	cadmium ion binding|copper ion binding|zinc ion binding				0						TGCTGCGACTGATGCCAGGAC	0.517													17	58					0	0	0.010504	0	0	
NLRC5	84166	broad.mit.edu	37	16	57060066	57060066	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:57060066C>T	uc002ekk.1	+	6	1436	c.1211C>T	c.(1210-1212)GCG>GTG	p.A404V	NLRC5_uc010ccq.1_RNA|NLRC5_uc002ekn.2_Missense_Mutation_p.A209V|NLRC5_uc002ekl.2_Missense_Mutation_p.A209V|NLRC5_uc002ekm.2_Missense_Mutation_p.A209V|NLRC5_uc010ccr.1_RNA	NM_032206	NP_115582	Q86WI3	NLRC5_HUMAN	nucleotide-binding oligomerization domains 27	404	NACHT.				defense response to virus|innate immune response|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|negative regulation of type I interferon-mediated signaling pathway|positive regulation of interferon-gamma-mediated signaling pathway|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type I interferon-mediated signaling pathway|regulation of kinase activity	cytosol|nucleus	ATP binding|protein binding|RNA polymerase II core promoter sequence-specific DNA binding			ovary(4)|skin(2)|breast(1)	7		all_neural(199;0.225)				AGCCTGTGTGCGGTGCCCGCA	0.617													37	63					0	0	0.002852	0	0	
NLRC5	84166	broad.mit.edu	37	16	57060074	57060074	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:57060074G>A	uc002ekk.1	+	6	1444	c.1219G>A	c.(1219-1221)GCA>ACA	p.A407T	NLRC5_uc010ccq.1_RNA|NLRC5_uc002ekn.2_Missense_Mutation_p.A212T|NLRC5_uc002ekl.2_Missense_Mutation_p.A212T|NLRC5_uc002ekm.2_Missense_Mutation_p.A212T|NLRC5_uc010ccr.1_RNA	NM_032206	NP_115582	Q86WI3	NLRC5_HUMAN	nucleotide-binding oligomerization domains 27	407	NACHT.				defense response to virus|innate immune response|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|negative regulation of type I interferon-mediated signaling pathway|positive regulation of interferon-gamma-mediated signaling pathway|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type I interferon-mediated signaling pathway|regulation of kinase activity	cytosol|nucleus	ATP binding|protein binding|RNA polymerase II core promoter sequence-specific DNA binding			ovary(4)|skin(2)|breast(1)	7		all_neural(199;0.225)				TGCGGTGCCCGCACTGTGCCA	0.597													6	85					0	0	0.001984	0	0	
POLR2C	5432	broad.mit.edu	37	16	57503154	57503154	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:57503154G>A	uc002elt.1	+	5	422	c.336G>A	c.(334-336)ACG>ACA	p.T112T	POLR2C_uc010vhq.1_Silent_p.T112T	NM_032940	NP_116558	P19387	RPB3_HUMAN	DNA directed RNA polymerase II polypeptide C	112					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|protein dimerization activity				0						AAGACCAGACGCGACATGTCA	0.572													19	56					0	0	0.005443	0	0	
CCDC135	84229	broad.mit.edu	37	16	57735853	57735853	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:57735853G>A	uc002emi.2	+	5	599	c.510G>A	c.(508-510)TCG>TCA	p.S170S	CCDC135_uc002emj.2_Silent_p.S170S|CCDC135_uc002emk.2_Intron	NM_032269	NP_115645	Q8IY82	CC135_HUMAN	coiled-coil domain containing 135	170						cytoplasm				central_nervous_system(1)	1						ACCAGCCCTCGCACCTGTACT	0.627													8	64					0	0	0.004482	0	0	
KIFC3	3801	broad.mit.edu	37	16	57805529	57805529	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:57805529G>A	uc002emp.2	-	5	648	c.451C>T	c.(451-453)CGG>TGG	p.R151W	KIFC3_uc010vhw.1_Missense_Mutation_p.R49W|KIFC3_uc002emn.2_RNA|KIFC3_uc002emm.2_Missense_Mutation_p.R12W|KIFC3_uc010vhx.1_Missense_Mutation_p.R12W|KIFC3_uc010cdf.2_Missense_Mutation_p.R12W|KIFC3_uc002emo.3_Missense_Mutation_p.R12W|KIFC3_uc010vhy.1_Missense_Mutation_p.R93W|KIFC3_uc002emq.2_Missense_Mutation_p.R151W|KIFC3_uc010vhz.1_Missense_Mutation_p.R173W|KIFC3_uc002emr.1_Intron|KIFC3_uc010cdg.1_RNA	NM_005550	NP_005541	Q9BVG8	KIFC3_HUMAN	kinesin family member C3 isoform 1	151	Potential.				epithelial cell-cell adhesion|microtubule-based movement|visual perception|zonula adherens maintenance	centrosome|cytoplasmic vesicle membrane|kinesin complex|microtubule|zonula adherens	ATP binding|microtubule motor activity			central_nervous_system(2)|ovary(1)	3		all_neural(199;0.224)				TCACAGCGCCGCATCTCCTGC	0.657													4	9					0	0	0.000602	0	0	
CNGB1	1258	broad.mit.edu	37	16	57957240	57957240	+	Missense_Mutation	SNP	G	A	A	rs78292723	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:57957240G>A	uc002emt.2	-	18	1645	c.1580C>T	c.(1579-1581)GCG>GTG	p.A527V	CNGB1_uc010cdh.2_Missense_Mutation_p.A521V	NM_001297	NP_001288	Q14028	CNGB1_HUMAN	cyclic nucleotide gated channel beta 1 isoform	527	Cytoplasmic (Potential).				sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)|pancreas(1)	4						TGGTGACAACGCCTTGAGCTC	0.572													12	46					0	0	0.002450	0	0	
ZNF319	57567	broad.mit.edu	37	16	58031051	58031051	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:58031051G>A	uc002emx.1	-	2	1742	c.1119C>T	c.(1117-1119)TGC>TGT	p.C373C		NM_020807	NP_065858	Q9P2F9	ZN319_HUMAN	zinc finger protein 319	373	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CACATAGGCCGCATTTGAAGG	0.617													16	32					0	0	0.004990	0	0	
ZNF319	57567	broad.mit.edu	37	16	58031575	58031575	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:58031575C>T	uc002emx.1	-	2	1218	c.595G>A	c.(595-597)GAC>AAC	p.D199N		NM_020807	NP_065858	Q9P2F9	ZN319_HUMAN	zinc finger protein 319	199					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TAGGGCTTGTCGGCCTGTTCA	0.647													19	44					0	0	0.001882	0	0	
CNOT1	23019	broad.mit.edu	37	16	58620473	58620473	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:58620473C>T	uc002env.2	-	7	906	c.613G>A	c.(613-615)GCT>ACT	p.A205T	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Missense_Mutation_p.A205T|CNOT1_uc002enx.2_Missense_Mutation_p.A205T|CNOT1_uc002enz.1_Intron	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	205					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol				ovary(4)|central_nervous_system(2)	6				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)		TTAAGAAAAGCGTCTATCTGT	0.473													12	279					0	0	0.001368	0	0	
CNOT1	23019	broad.mit.edu	37	16	58622736	58622736	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:58622736G>A	uc002env.2	-	3	470	c.177C>T	c.(175-177)GGC>GGT	p.G59G	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Silent_p.G59G|CNOT1_uc002enx.2_Silent_p.G59G|CNOT1_uc002enz.1_5'UTR	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	59					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol				ovary(4)|central_nervous_system(2)	6				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)		TTTTACCATCGCCACTGAAAT	0.408													10	20					0	0	0.002450	0	0	
SLC38A7	55238	broad.mit.edu	37	16	58712668	58712668	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:58712668G>A	uc002eod.1	-	4	794	c.401C>T	c.(400-402)GCC>GTC	p.A134V	SLC38A7_uc002eob.1_RNA|SLC38A7_uc002eoc.1_Missense_Mutation_p.A134V|SLC38A7_uc010vil.1_Missense_Mutation_p.A45V|SLC38A7_uc002eoe.1_Missense_Mutation_p.A134V	NM_018231	NP_060701	Q9NVC3	S38A7_HUMAN	solute carrier family 38, member 7	134	Helical; (Potential).				amino acid transport|sodium ion transport	integral to membrane				ovary(1)	1						GACAGCGATGGCCACCTCACA	0.567													13	25					0	0	0.001855	0	0	
LOC283867	283867	broad.mit.edu	37	16	65319329	65319329	+	RNA	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:65319329C>T	uc010cdo.1	-	6		c.493G>A			LOC283867_uc010cdp.1_RNA|LOC283867_uc002eol.1_RNA					Homo sapiens cDNA clone IMAGE:5276218.												0				OV - Ovarian serous cystadenocarcinoma(108;0.17)		TAATGCTTGGCGGTCTTGTGT	0.398													9	29					0	0	0.006214	0	0	
CDH5	1003	broad.mit.edu	37	16	66420974	66420974	+	Missense_Mutation	SNP	C	T	T	rs150311666		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:66420974C>T	uc002eom.3	+	3	629	c.473C>T	c.(472-474)GCG>GTG	p.A158V	CDH5_uc002eon.1_Missense_Mutation_p.A158V	NM_001795	NP_001786	P33151	CADH5_HUMAN	cadherin 5, type 2 preproprotein	158	Cadherin 2.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|regulation of establishment of cell polarity	integral to membrane|membrane fraction	beta-catenin binding|calcium ion binding|ion channel binding|receptor binding			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6		Ovarian(137;0.0955)		OV - Ovarian serous cystadenocarcinoma(108;0.107)		TTGTTCAATGCGTCCGTGCCT	0.572													5	28					0	0	0.000602	0	0	
CMTM2	146225	broad.mit.edu	37	16	66613521	66613521	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:66613521A>C	uc002ept.2	+	1	171	c.11A>C	c.(10-12)AAG>ACG	p.K4T	CMTM2_uc010cdu.2_Missense_Mutation_p.K4T	NM_144673	NP_653274	Q8TAZ6	CKLF2_HUMAN	chemokine-like factor superfamily 2	4					chemotaxis	extracellular space|integral to membrane	cytokine activity			ovary(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.068)|Epithelial(162;0.212)		ATGGCACCTAAGGCGGCAAAG	0.597													8	25					0	0	0.001368	0	0	
NAE1	8883	broad.mit.edu	37	16	66852491	66852491	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:66852491C>T	uc002eqf.2	-	8	638	c.561G>A	c.(559-561)AAG>AAA	p.K187K	NAE1_uc002eqe.2_Silent_p.K181K|NAE1_uc002eqg.2_Silent_p.K98K|NAE1_uc010cdv.2_Silent_p.K190K|NAE1_uc010cdw.1_Silent_p.K98K	NM_003905	NP_003896	Q13564	ULA1_HUMAN	NEDD8 activating enzyme E1 subunit 1 isoform a	187					apoptosis|cell cycle|DNA replication|mitotic cell cycle DNA replication checkpoint|protein neddylation|signal transduction	cytoplasm|insoluble fraction|plasma membrane	catalytic activity|protein heterodimerization activity			ovary(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0914)|Epithelial(162;0.214)	Adenosine triphosphate(DB00171)	CAGGAAATGGCTTATCTAGTC	0.313													4	52					0	0	0.000602	0	0	
CBFB	865	broad.mit.edu	37	16	67116168	67116168	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:67116168G>A	uc002era.2	+	5	713	c.452G>A	c.(451-453)CGC>CAC	p.R151H	CBFB_uc002erb.2_Missense_Mutation_p.R151H|CBFB_uc010vja.1_Intron	NM_001755	NP_001746	Q13951	PEBB_HUMAN	core-binding factor, beta subunit isoform 2	151					transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			breast(2)	2		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00189)|Epithelial(162;0.00755)|all cancers(182;0.066)		AGAAGGACACGCGAATTTGAA	0.423			T	MYH11	AML								13	25					0	0	0.006122	0	0	
C16orf70	80262	broad.mit.edu	37	16	67168349	67168349	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:67168349C>T	uc002erc.2	+	9	724	c.640C>T	c.(640-642)CGA>TGA	p.R214*	C16orf70_uc002erd.2_Nonsense_Mutation_p.R214*|C16orf70_uc002ere.1_3'UTR	NM_025187	NP_079463	Q9BSU1	CP070_HUMAN	lin-10	214										ovary(2)	2		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0017)|Epithelial(162;0.00655)|all cancers(182;0.0579)		TGCAGGTTTACGACTTCGCCT	0.507													43	149					0	0	0.003214	0	0	
ELMO3	79767	broad.mit.edu	37	16	67234673	67234673	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:67234673C>T	uc002esa.2	+	7	829	c.786C>T	c.(784-786)AGC>AGT	p.S262S	ELMO3_uc002esb.2_Silent_p.S245S|ELMO3_uc002esc.2_Silent_p.S96S	NM_024712	NP_078988	Q96BJ8	ELMO3_HUMAN	engulfment and cell motility 3	209					apoptosis|phagocytosis	cytoplasm|cytoskeleton	SH3 domain binding				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00067)|Epithelial(162;0.00442)|all cancers(182;0.0417)		TGGTCAAGAGCGAGGTGCCCC	0.632													4	9					0	0	0.000602	0	0	
TPPP3	51673	broad.mit.edu	37	16	67424250	67424250	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:67424250C>T	uc002esz.2	-	3	1193	c.358G>A	c.(358-360)GGT>AGT	p.G120S	TPPP3_uc002eta.2_Missense_Mutation_p.G120S|TPPP3_uc002etb.2_Missense_Mutation_p.G120S	NM_016140	NP_057224	Q9BW30	TPPP3_HUMAN	tubulin polymerization-promoting protein family	120					microtubule bundle formation	cytoplasm|microtubule	calcium ion binding|tubulin binding			central_nervous_system(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0336)|Epithelial(162;0.0781)		TCTACAGCACCCCCTGTTTTT	0.617													17	34					0	0	0.004656	0	0	
ZDHHC1	29800	broad.mit.edu	37	16	67432185	67432185	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:67432185C>T	uc010vjm.1	-	8	1161	c.857G>A	c.(856-858)CGC>CAC	p.R286H		NM_013304	NP_037436	Q8WTX9	ZDHC1_HUMAN	zinc finger, DHHC-type containing 1	286						integral to membrane	DNA binding|zinc ion binding				0		Ovarian(137;0.223)		UCEC - Uterine corpus endometrioid carcinoma (183;0.0178)|all cancers(182;5.71e-53)|Epithelial(162;4.73e-52)|OV - Ovarian serous cystadenocarcinoma(108;1.53e-29)|Kidney(780;4.37e-05)|BRCA - Breast invasive adenocarcinoma(181;5.8e-05)|GBM - Glioblastoma multiforme(240;0.0022)		CTGTGGTGGGCGGTGCTGCAC	0.617													5	63					0	0	0.001168	0	0	
HSD11B2	3291	broad.mit.edu	37	16	67470767	67470767	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:67470767G>A	uc002etd.2	+	5	1195	c.1079G>A	c.(1078-1080)CGC>CAC	p.R360H		NM_000196	NP_000187	P80365	DHI2_HUMAN	hydroxysteroid (11-beta) dehydrogenase 2	360					glucocorticoid biosynthetic process	endoplasmic reticulum|microsome					0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0401)|Epithelial(162;0.0891)	NADH(DB00157)	GGCCTGCGGCGCCGCTTCCTG	0.667													20	37					0	0	0.002299	0	0	
RANBP10	57610	broad.mit.edu	37	16	67763353	67763353	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:67763353C>T	uc002eud.2	-	10	1298	c.1182G>A	c.(1180-1182)GCG>GCA	p.A394A	RANBP10_uc010ceo.2_Silent_p.A165A|RANBP10_uc010vju.1_Silent_p.A338A|RANBP10_uc010vjv.1_Silent_p.A277A|RANBP10_uc010vjw.1_Silent_p.A55A	NM_020850	NP_065901	Q6VN20	RBP10_HUMAN	RAN binding protein 10	394	Ser-rich.									ovary(1)	1		Acute lymphoblastic leukemia(13;4.34e-06)|all_hematologic(13;0.000643)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.00522)|Epithelial(162;0.025)|all cancers(182;0.157)		TCTTGGTGGACGCGACGCCAT	0.403													5	27					0	0	0.003080	0	0	
CTRL	1506	broad.mit.edu	37	16	67964654	67964654	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:67964654G>T	uc002euw.2	-	4	303	c.293C>A	c.(292-294)CCC>CAC	p.P98H		NM_001907	NP_001898	P40313	CTRL_HUMAN	chymotrypsin-like precursor	98	Peptidase S1.				digestion|proteolysis	extracellular space	serine-type endopeptidase activity				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.00412)|Epithelial(162;0.018)|all cancers(182;0.118)		AACCTGCAAGGGCTCTGCGTT	0.617													15	36					2.31682e-05	2.44218e-05	0.003163	1	0	
NFATC3	4775	broad.mit.edu	37	16	68160498	68160498	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:68160498A>G	uc002evo.1	+	3	1596	c.1386A>G	c.(1384-1386)GGA>GGG	p.G462G	NFATC3_uc010vkl.1_5'UTR|NFATC3_uc010vkm.1_5'UTR|NFATC3_uc010vkn.1_5'UTR|NFATC3_uc010vko.1_5'UTR|NFATC3_uc010vkp.1_5'UTR|NFATC3_uc010vkq.1_5'UTR|NFATC3_uc002evl.2_Intron|NFATC3_uc002evk.2_Silent_p.G462G|NFATC3_uc002evm.1_Silent_p.G462G|NFATC3_uc002evn.1_Silent_p.G462G|NFATC3_uc010vkr.1_5'UTR|NFATC3_uc010vks.1_5'UTR|NFATC3_uc010vkt.1_5'UTR|NFATC3_uc010vku.1_5'UTR|NFATC3_uc010vkv.1_5'UTR|NFATC3_uc010vkw.1_5'UTR|NFATC3_uc010vkx.1_5'UTR|NFATC3_uc010vky.1_5'UTR|NFATC3_uc010vkz.1_5'UTR|NFATC3_uc010vla.1_5'UTR|NFATC3_uc010vlb.1_5'UTR|NFATC3_uc010vlc.1_5'UTR	NM_173165	NP_775188	Q12968	NFAC3_HUMAN	nuclear factor of activated T-cells,	462	RHD.				inflammatory response|transcription from RNA polymerase II promoter	nucleolus|plasma membrane	DNA binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0119)|Epithelial(162;0.0452)|all cancers(182;0.24)		CTACTGGGGGACATCCTGTTG	0.428													11	51					0	0	0.001855	0	0	
SLC7A6OS	84138	broad.mit.edu	37	16	68336334	68336334	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:68336334C>T	uc002evw.1	-	4	768	c.749G>A	c.(748-750)CGC>CAC	p.R250H		NM_032178	NP_115554	Q96CW6	S7A6O_HUMAN	solute carrier family 7, member 6 opposite	250					protein transport	cytoplasm|nucleus				ovary(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.034)|Epithelial(162;0.106)		GTACTCATTGCGCCAGTTATT	0.507													12	114					0	0	0.001855	0	0	
CDH3	1001	broad.mit.edu	37	16	68725731	68725731	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:68725731C>T	uc002ewf.2	+	13	3036	c.1904C>T	c.(1903-1905)GCC>GTC	p.A635V	CDH3_uc010vli.1_Missense_Mutation_p.A580V	NM_001793	NP_001784	P22223	CADH3_HUMAN	cadherin 3, type 1 preproprotein	635	Cadherin 5.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|response to stimulus|visual perception	integral to membrane	calcium ion binding	p.?(1)		ovary(3)|breast(1)|skin(1)	5		Ovarian(137;0.0564)		OV - Ovarian serous cystadenocarcinoma(108;0.000782)|Epithelial(162;0.0054)|all cancers(182;0.0384)		GTGATCAGGGCCACTGTGTGC	0.567													12	61					0	0	0.004007	0	0	
TERF2	7014	broad.mit.edu	37	16	69390889	69390889	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:69390889G>A	uc002exd.2	-	10	1540	c.1415C>T	c.(1414-1416)GCC>GTC	p.A472V		NM_005652	NP_005643	Q15554	TERF2_HUMAN	telomeric repeat binding factor 2	472	HTH myb-type.|H-T-H motif.				age-dependent telomere shortening|cell cycle|cellular senescence|negative regulation of telomere maintenance via semi-conservative replication|protection from non-homologous end joining at telomere|protein localization to chromosome, telomeric region|regulation of transcription, DNA-dependent|telomeric loop formation	Golgi apparatus|nuclear telomere cap complex|nucleoplasm	double-stranded telomeric DNA binding|protein C-terminus binding|protein homodimerization activity			lung(1)	1		Ovarian(137;0.101)				TTTAGAAATGGCAGCCCAGTT	0.433													23	78					0	0	0.003954	0	0	
WWP2	11060	broad.mit.edu	37	16	69874131	69874131	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:69874131T>G	uc002exu.1	+	6	532	c.443T>G	c.(442-444)CTG>CGG	p.L148R	WWP2_uc002ext.2_Missense_Mutation_p.L148R|WWP2_uc002exv.1_Missense_Mutation_p.L148R|WWP2_uc010vlm.1_Missense_Mutation_p.L32R	NM_007014	NP_008945	O00308	WWP2_HUMAN	WW domain containing E3 ubiquitin protein ligase	148					entry of virus into host cell|negative regulation of protein transport|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transporter activity|proteasomal ubiquitin-dependent protein catabolic process|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|ubiquitin ligase complex	RNA polymerase II transcription factor binding|ubiquitin-protein ligase activity			lung(3)|ovary(1)|breast(1)|skin(1)	6						ACTGTTGATCTGGGAAATGTG	0.612													24	53					0	0	0.005443	0	0	
WWP2	11060	broad.mit.edu	37	16	69942692	69942692	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:69942692C>T	uc002exu.1	+	10	1032	c.943C>T	c.(943-945)CGT>TGT	p.R315C	WWP2_uc002ext.2_Missense_Mutation_p.R315C|WWP2_uc002exv.1_Missense_Mutation_p.R315C|WWP2_uc010vlm.1_Missense_Mutation_p.R199C	NM_007014	NP_008945	O00308	WWP2_HUMAN	WW domain containing E3 ubiquitin protein ligase	315	WW 1.				entry of virus into host cell|negative regulation of protein transport|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transporter activity|proteasomal ubiquitin-dependent protein catabolic process|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|ubiquitin ligase complex	RNA polymerase II transcription factor binding|ubiquitin-protein ligase activity			lung(3)|ovary(1)|breast(1)|skin(1)	6						GCCCAACGGACGTGTCTATTA	0.517													33	78					0	0	0.005524	0	0	
HYDIN	54768	broad.mit.edu	37	16	70867804	70867804	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:70867804G>A	uc002ezr.2	-	79	13790	c.13662C>T	c.(13660-13662)GGC>GGT	p.G4554G	HYDIN_uc010cfy.2_RNA	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	4555										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				CACCCACATCGCCTGTGTTCA	0.577													5	11					0	0	0.001168	0	0	
CHST4	10164	broad.mit.edu	37	16	71570901	71570901	+	Silent	SNP	C	T	T	rs146763647	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:71570901C>T	uc002fan.2	+	2	502	c.321C>T	c.(319-321)AGC>AGT	p.S107S	CHST4_uc002fao.2_Silent_p.S107S	NM_005769	NP_005760	Q8NCG5	CHST4_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	107	Lumenal (Potential).				cell-cell signaling|immune response|inflammatory response|N-acetylglucosamine metabolic process|protein sulfation	integral to membrane|intrinsic to Golgi membrane|trans-Golgi network	N-acetylglucosamine 6-O-sulfotransferase activity				0						GCGACATGAGCGTCTTTGATG	0.597													13	39					0	0	0.004007	0	0	
PHLPP2	23035	broad.mit.edu	37	16	71689242	71689242	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:71689242C>T	uc002fax.2	-	16	2492	c.2486G>A	c.(2485-2487)CGC>CAC	p.R829H	PHLPP2_uc002fav.2_RNA|PHLPP2_uc010cgf.2_Missense_Mutation_p.R762H	NM_015020	NP_055835	Q6ZVD8	PHLP2_HUMAN	PH domain and leucine rich repeat protein	829	PP2C-like.					cytoplasm|membrane|nucleus	metal ion binding|phosphoprotein phosphatase activity			ovary(1)|central_nervous_system(1)	2						CTGCAGCAGGCGCGGGAGCTC	0.498													7	166					0	0	0.003080	0	0	
DHX38	9785	broad.mit.edu	37	16	72130190	72130190	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:72130190G>A	uc002fcb.2	+	2	489	c.134G>A	c.(133-135)CGC>CAC	p.R45H	TXNL4B_uc010cgl.2_5'Flank|TXNL4B_uc002fca.2_5'Flank|TXNL4B_uc010vmn.1_5'Flank|TXNL4B_uc010vmo.1_5'Flank|DHX38_uc010vmp.1_Missense_Mutation_p.R45H|DHX38_uc010cgn.1_5'Flank	NM_014003	NP_054722	Q92620	PRP16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 38	45					mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1		Ovarian(137;0.125)				CCTGCTCCCCGCCCTTCATTA	0.552													8	24					0	0	0.006214	0	0	
DHX38	9785	broad.mit.edu	37	16	72130838	72130838	+	Silent	SNP	G	A	A	rs148616280		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:72130838G>A	uc002fcb.2	+	3	796	c.441G>A	c.(439-441)TCG>TCA	p.S147S	TXNL4B_uc010vmo.1_5'Flank|DHX38_uc010vmp.1_Intron|DHX38_uc010cgn.1_RNA	NM_014003	NP_054722	Q92620	PRP16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 38	147					mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1		Ovarian(137;0.125)				TCTATGCCTCGTCCAAAGAAG	0.547													33	64					0	0	0.002836	0	0	
DHX38	9785	broad.mit.edu	37	16	72138392	72138392	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:72138392C>T	uc002fcb.2	+	15	2373	c.2018C>T	c.(2017-2019)GCT>GTT	p.A673V	DHX38_uc010vmp.1_Intron	NM_014003	NP_054722	Q92620	PRP16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 38	673	Helicase ATP-binding.				mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1		Ovarian(137;0.125)				CAGGTAGTGGCTCGGCGCTCA	0.607													9	11					0	0	0.006214	0	0	
PMFBP1	83449	broad.mit.edu	37	16	72162994	72162994	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:72162994G>A	uc002fcc.3	-	13	2108	c.1936C>T	c.(1936-1938)CGG>TGG	p.R646W	PMFBP1_uc002fcd.2_Missense_Mutation_p.R641W|PMFBP1_uc002fce.2_Intron|PMFBP1_uc002fcf.2_Missense_Mutation_p.R496W|PMFBP1_uc010cgo.1_5'Flank	NM_031293	NP_112583	Q8TBY8	PMFBP_HUMAN	polyamine modulated factor 1 binding protein 1	646	Potential.									ovary(2)	2		Ovarian(137;0.179)				AATTCCTGCCGCAAAGCTTCA	0.527													42	124					0	0	0.003610	0	0	
ZFHX3	463	broad.mit.edu	37	16	72821829	72821829	+	Missense_Mutation	SNP	G	A	A	rs140437495		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:72821829G>A	uc002fck.2	-	10	11019	c.10346C>T	c.(10345-10347)GCG>GTG	p.A3449V	ZFHX3_uc002fcl.2_Missense_Mutation_p.A2535V	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	3449					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				GAGGGAGTCCGCACTTTTGCT	0.572													28	58					0	0	0.009535	0	0	
ZFHX3	463	broad.mit.edu	37	16	72822480	72822480	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:72822480C>T	uc002fck.2	-	10	10368	c.9695G>A	c.(9694-9696)CGC>CAC	p.R3232H	ZFHX3_uc002fcl.2_Missense_Mutation_p.R2318H	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	3232					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				TTTGTCCTTGCGTTGCTGCTG	0.502													32	93					0	0	0.007835	0	0	
ZFHX3	463	broad.mit.edu	37	16	72991508	72991508	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:72991508C>T	uc002fck.2	-	2	3210	c.2537G>A	c.(2536-2538)CGC>CAC	p.R846H	ZFHX3_uc002fcl.2_Intron	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	846				RHLG -> HHRV (in Ref. 1).	muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				GCCCAGGTGGCGGTTGTGTTG	0.562													11	27					0	0	0.001368	0	0	
LOC283922	283922	broad.mit.edu	37	16	74372644	74372644	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:74372644A>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													13	43					0	0	0.003163	0	0	
LOC283922	283922	broad.mit.edu	37	16	74372765	74372765	+	Missense_Mutation	SNP	T	C	C	rs2549261	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:74372765T>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													5	53					0	0	0.000602	0	0	
LDHD	197257	broad.mit.edu	37	16	75149234	75149234	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:75149234G>A	uc002fdm.2	-	3	236	c.189C>T	c.(187-189)TGC>TGT	p.C63C	LDHD_uc002fdn.2_Silent_p.C63C	NM_153486	NP_705690	Q86WU2	LDHD_HUMAN	D-lactate dehydrogenase isoform 1 precursor	63	FAD-binding PCMH-type.						D-lactate dehydrogenase (cytochrome) activity|flavin adenine dinucleotide binding|protein binding				0						CAGGAGGTTCGCACCTAGAAC	0.627													9	80					0	0	0.006214	0	0	
ADAT1	23536	broad.mit.edu	37	16	75654554	75654554	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:75654554G>A	uc002feo.1	-	3	246	c.144C>T	c.(142-144)TGC>TGT	p.C48C	ADAT1_uc002fep.1_5'UTR	NM_012091	NP_036223	Q9BUB4	ADAT1_HUMAN	adenosine deaminase, tRNA-specific 1	48					tRNA processing		metal ion binding|RNA binding|tRNA-specific adenosine deaminase activity			ovary(1)|skin(1)	2						CAGGGGTGTCGCAGGCCTTGT	0.507													6	57					0	0	0.003080	0	0	
C16orf46	123775	broad.mit.edu	37	16	81095510	81095510	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:81095510G>A	uc002fgc.3	-	4	703	c.444C>T	c.(442-444)AGC>AGT	p.S148S	C16orf46_uc010chf.2_Silent_p.S148S|C16orf46_uc010vno.1_5'UTR	NM_152337	NP_689550	Q6P387	CP046_HUMAN	chromosome 16 open reading frame 46 isoform 2	148											0						AGCAGATGTCGCTAATTGCCC	0.557													32	96					0	0	0.004289	0	0	
BCMO1	53630	broad.mit.edu	37	16	81279097	81279097	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:81279097C>T	uc002fgn.1	+	2	300	c.82C>T	c.(82-84)CTG>TTG	p.L28L	BCMO1_uc002fgm.1_Silent_p.L28L|BCMO1_uc010vnp.1_Missense_Mutation_p.A2V	NM_017429	NP_059125	Q9HAY6	BCDO1_HUMAN	beta-carotene 15,15'-monooxygenase	28					retinoid metabolic process|steroid metabolic process	cytosol	beta-carotene 15,15'-monooxygenase activity|metal ion binding|monooxygenase activity				0						TCCAGCATGGCTGCAGGGAAC	0.512													46	132					0	0	0.003610	0	0	
PLCG2	5336	broad.mit.edu	37	16	81973507	81973507	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:81973507C>T	uc002fgt.2	+	30	3476	c.3324C>T	c.(3322-3324)GGC>GGT	p.G1108G		NM_002661	NP_002652	P16885	PLCG2_HUMAN	phospholipase C, gamma 2	1108	C2.				intracellular signal transduction|phospholipid catabolic process|platelet activation	plasma membrane	phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			large_intestine(4)|lung(2)|ovary(1)|skin(1)	8						atgataatggcctcagcccta	0.328													5	75					0	0	0.001984	0	0	
HSD17B2	3294	broad.mit.edu	37	16	82131906	82131906	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:82131906C>T	uc002fgv.2	+	5	1201	c.1029C>T	c.(1027-1029)GGC>GGT	p.G343G		NM_002153	NP_002144	P37059	DHB2_HUMAN	hydroxysteroid (17-beta) dehydrogenase 2	343					response to retinoic acid|steroid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	17-alpha,20-alpha-dihydroxypregn-4-en-3-one dehydrogenase activity|binding|estradiol 17-beta-dehydrogenase activity|testosterone 17-beta-dehydrogenase (NAD+) activity			ovary(1)|central_nervous_system(1)	2					NADH(DB00157)	CAGGGAAAGGCGCTTACTTGT	0.498													18	140					0	0	0.008871	0	0	
CRISPLD2	83716	broad.mit.edu	37	16	84922872	84922872	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:84922872G>T	uc010voh.1	+	14	1569	c.1342G>T	c.(1342-1344)GTC>TTC	p.V448F	CRISPLD2_uc010vog.1_Intron|CRISPLD2_uc002fio.2_Missense_Mutation_p.V447F	NM_031476	NP_113664	Q9H0B8	CRLD2_HUMAN	cysteine-rich secretory protein LCCL domain	448	LCCL 2.					extracellular region|transport vesicle					0						GCACGCGGGAGTCATCAGCAA	0.567													4	145					0.00116845	0.00121571	0.001168	1	0	
FOXF1	2294	broad.mit.edu	37	16	86544554	86544554	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:86544554G>A	uc002fjl.2	+	1	422	c.379G>A	c.(379-381)GCC>ACC	p.A127T	uc002fjk.1_5'Flank	NM_001451	NP_001442	Q12946	FOXF1_HUMAN	forkhead box F1	127	Fork-head.				branching involved in open tracheal system development|cardiac left ventricle morphogenesis|embryonic ectodermal digestive tract morphogenesis|endocardial cushion development|in utero embryonic development|lung vasculature development|midgut development|pancreas development|positive regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|ureter development|venous blood vessel development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding				0						CATCGACCCGGCCAGCGAGTT	0.637													22	49					0	0	0.005443	0	0	
MTHFSD	64779	broad.mit.edu	37	16	86575334	86575334	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:86575334C>T	uc002fjn.2	-	7	701	c.650G>A	c.(649-651)CGC>CAC	p.R217H	MTHFSD_uc010voo.1_Missense_Mutation_p.R197H|MTHFSD_uc002fjo.2_Missense_Mutation_p.R54H|MTHFSD_uc002fjm.2_Missense_Mutation_p.R216H|MTHFSD_uc010vop.1_Missense_Mutation_p.R54H|MTHFSD_uc010voq.1_Missense_Mutation_p.R216H|MTHFSD_uc010vor.1_Missense_Mutation_p.R217H|MTHFSD_uc002fjp.2_Missense_Mutation_p.R197H	NM_001159377	NP_001152849	Q2M296	MTHSD_HUMAN	methenyltetrahydrofolate synthetase domain	217					folic acid-containing compound biosynthetic process		5-formyltetrahydrofolate cyclo-ligase activity|ATP binding|RNA binding				0						TGGCTTTGGGCGCTTGCAGCC	0.562													8	19					0	0	0.003080	0	0	
FOXL1	2300	broad.mit.edu	37	16	86612374	86612374	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:86612374G>A	uc002fjr.2	+	1	260	c.45G>A	c.(43-45)TCG>TCA	p.S15S		NM_005250	NP_005241	Q12952	FOXL1_HUMAN	forkhead box L1	15					brain development|camera-type eye development|cartilage development|embryo development|forelimb morphogenesis|heart development|organ morphogenesis|pattern specification process|proteoglycan biosynthetic process|regulation of sequence-specific DNA binding transcription factor activity|regulation of Wnt receptor signaling pathway|visceral mesoderm-endoderm interaction involved in midgut development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			skin(1)	1						TGGCCGCCTCGCCCATGCTGT	0.721													12	33					0	0	0.007413	0	0	
ZCCHC14	23174	broad.mit.edu	37	16	87445771	87445771	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:87445771C>T	uc002fjz.1	-	12	2172	c.2145G>A	c.(2143-2145)ACG>ACA	p.T715T	ZCCHC14_uc002fka.1_RNA|ZCCHC14_uc002fkb.2_Silent_p.T491T	NM_015144	NP_055959	Q8WYQ9	ZCH14_HUMAN	zinc finger, CCHC domain containing 14	715	Ser-rich.				cell communication		nucleic acid binding|phosphatidylinositol binding|zinc ion binding			upper_aerodigestive_tract(1)|breast(1)	2				BRCA - Breast invasive adenocarcinoma(80;0.0285)		TGGCAAAGGACGTGGAGGGGT	0.617													5	11					0	0	0.004482	0	0	
SNAI3	333929	broad.mit.edu	37	16	88744868	88744868	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:88744868G>A	uc002flj.2	-	3	935	c.867C>T	c.(865-867)TGC>TGT	p.C289C	MGC23284_uc002fli.3_Intron	NM_178310	NP_840101	Q3KNW1	SNAI3_HUMAN	snail homolog 3	289					oxidation-reduction process		copper ion binding|DNA binding|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.048)		AGGGGCCCGGGCAGCAGCCAG	0.682													6	9					0	0	0.003080	0	0	
CDT1	81620	broad.mit.edu	37	16	88872194	88872194	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:88872194G>A	uc002flu.2	+	5	803	c.749G>A	c.(748-750)CGC>CAC	p.R250H		NM_030928	NP_112190	Q9H211	CDT1_HUMAN	chromatin licensing and DNA replication factor	250					DNA replication|DNA replication checkpoint|M/G1 transition of mitotic cell cycle|regulation of DNA-dependent DNA replication initiation|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle	cytosol|nucleoplasm	DNA binding|protein binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0476)		TACCGCTTCCGCCAGGAGCGC	0.632													5	18					0	0	0.001168	0	0	
APRT	353	broad.mit.edu	37	16	88876190	88876190	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:88876190G>A	uc002flv.2	-	5	494	c.459C>T	c.(457-459)TGC>TGT	p.C153C	APRT_uc002flw.2_Intron	NM_000485	NP_000476	P07741	APT_HUMAN	adenine phosphoribosyltransferase isoform a	153			C -> R (in APRTD).		purine ribonucleoside salvage	cytosol|nucleus	adenine phosphoribosyltransferase activity|AMP binding|protein binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0477)	Adenine(DB00173)|Adenosine monophosphate(DB00131)	CCAGGCTCACGCACTCCAGGA	0.637													9	23					0	0	0.006214	0	0	
ANKRD11	29123	broad.mit.edu	37	16	89348895	89348895	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:89348895T>C	uc002fmx.1	-	9	4516	c.4055A>G	c.(4054-4056)CAC>CGC	p.H1352R	ANKRD11_uc002fmy.1_Missense_Mutation_p.H1352R|ANKRD11_uc002fnc.1_Missense_Mutation_p.H1352R|ANKRD11_uc002fna.1_5'Flank|ANKRD11_uc002fnb.1_Missense_Mutation_p.H1309R	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	1352	Lys-rich.					nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		AGATGAGGAGTGTCTGTGCCT	0.572													6	47					0	0	0.001984	0	0	
FANCA	2175	broad.mit.edu	37	16	89857839	89857839	+	Missense_Mutation	SNP	G	A	A	rs144234991		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:89857839G>A	uc002fou.1	-	14	1373	c.1331C>T	c.(1330-1332)GCG>GTG	p.A444V	FANCA_uc010vpn.1_Missense_Mutation_p.A444V	NM_000135	NP_000126	O15360	FANCA_HUMAN	Fanconi anemia, complementation group A isoform	444					DNA repair|protein complex assembly	cytoplasm|nucleoplasm	protein binding			ovary(2)|breast(2)|central_nervous_system(1)|skin(1)	6		Lung NSC(15;8.48e-06)|all_lung(18;1.31e-05)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.028)		TGACAGGAACGCAGAGGGGCC	0.592			D|Mis|N|F|S			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				7	7					0	0	0.001984	0	0	
TCF25	22980	broad.mit.edu	37	16	89967183	89967183	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:89967183G>A	uc002fpb.2	+	12	1444	c.1362G>A	c.(1360-1362)GCG>GCA	p.A454A	TCF25_uc002fpc.2_Silent_p.A219A	NM_014972	NP_055787	Q9BQ70	TCF25_HUMAN	NULP1	454					heart development|negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(9;4.71e-08)|Lung NSC(15;0.000192)|all_lung(18;0.000319)|all_neural(9;0.0122)|all_hematologic(23;0.027)		BRCA - Breast invasive adenocarcinoma(80;0.0288)		TACAGCAGGCGCTCACCATGT	0.622													9	22					0	0	0.000978	0	0	
TUBB3	10381	broad.mit.edu	37	16	89986038	89986038	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:89986038C>A	uc002fpf.2	+	1	780	c.372C>A	c.(370-372)ACC>ACA	p.T124T	MC1R_uc002fpe.3_Silent_p.T124T|TUBB3_uc010ciz.1_5'Flank	NM_006086	NP_006077	Q13509	TBB3_HUMAN	tubulin, beta, 4	Error:Variant_position_missing_in_Q13509_after_alignment					'de novo' posttranslational protein folding|axon guidance|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			ovary(2)|pancreas(1)	3		all_cancers(9;1.69e-11)|Lung NSC(15;8.94e-06)|all_lung(18;1.39e-05)|all_neural(9;0.00581)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0273)		ACGTGATCACCTGCAGCTCCA	0.637													5	28					0.000602214	0.000627828	0.000602	1	0	
TUBB3	10381	broad.mit.edu	37	16	90001913	90001913	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:90001913G>A	uc002fph.1	+	4	1119	c.1054G>A	c.(1054-1056)GCC>ACC	p.A352T	TUBB3_uc002fpf.2_Missense_Mutation_p.A699T|TUBB3_uc010ciz.1_Missense_Mutation_p.A280T|TUBB3_uc002fpg.1_Missense_Mutation_p.A206T|TUBB3_uc002fpi.1_Missense_Mutation_p.A280T|TUBB3_uc002fpj.1_Missense_Mutation_p.A280T|TUBB3_uc010cjb.1_Missense_Mutation_p.A206T|TUBB3_uc002fpk.1_Missense_Mutation_p.A206T	NM_006086	NP_006077	Q13509	TBB3_HUMAN	tubulin, beta, 4	352					'de novo' posttranslational protein folding|axon guidance|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			ovary(2)|pancreas(1)	3		all_cancers(9;1.69e-11)|Lung NSC(15;8.94e-06)|all_lung(18;1.39e-05)|all_neural(9;0.00581)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0273)		CGTGAAGGTGGCCGTGTGTGA	0.602													27	95					0	0	0.003755	0	0	
GAS8	2622	broad.mit.edu	37	16	90099232	90099232	+	Missense_Mutation	SNP	G	A	A	rs145845004		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:90099232G>A	uc002fqi.1	+	4	517	c.395G>A	c.(394-396)CGC>CAC	p.R132H	GAS8_uc010vps.1_Missense_Mutation_p.R107H|GAS8_uc002fqh.2_Missense_Mutation_p.R49H|GAS8_uc010vpt.1_Missense_Mutation_p.R132H|GAS8_uc010vpu.1_Missense_Mutation_p.R49H|GAS8_uc010vpv.1_Missense_Mutation_p.R103H|GAS8_uc010cjc.1_Missense_Mutation_p.R49H|GAS8_uc010vpw.1_Missense_Mutation_p.R49H|GAS8_uc002fqj.1_5'UTR|C16orf3_uc002fqk.1_5'Flank	NM_001481	NP_001472	O95995	GAS8_HUMAN	growth arrest-specific 8	132	Microtubule-binding.				negative regulation of cell proliferation|sperm motility	cilium|Golgi apparatus|microtubule|microtubule basal body|microtubule-based flagellum	protein binding			ovary(1)	1		all_cancers(9;4.44e-13)|Lung NSC(15;1.56e-06)|all_lung(18;2.18e-06)|all_neural(9;0.00118)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.029)		AAAGAGCACCGCATACAGGAG	0.557													11	48					0	0	0.008291	0	0	
C17orf97	400566	broad.mit.edu	37	17	263122	263122	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:263122C>T	uc002frh.2	+	2	504	c.488C>T	c.(487-489)GCG>GTG	p.A163V	C17orf97_uc010vpz.1_5'Flank	NM_001013672	NP_001013694	Q6ZQX7	CQ097_HUMAN	hypothetical protein LOC400566	163										ovary(1)	1						GAGAACCTTGCGAATCGGATC	0.512													29	54					0	0	0.002096	0	0	
C17orf97	400566	broad.mit.edu	37	17	263194	263194	+	Missense_Mutation	SNP	G	A	A	rs141704289		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:263194G>A	uc002frh.2	+	2	576	c.560G>A	c.(559-561)CGC>CAC	p.R187H	C17orf97_uc010vpz.1_5'Flank	NM_001013672	NP_001013694	Q6ZQX7	CQ097_HUMAN	hypothetical protein LOC400566	187										ovary(1)	1						GAAAGGATTCGCATCTATAAA	0.567													23	55					0	0	0.002780	0	0	
VPS53	55275	broad.mit.edu	37	17	526892	526892	+	Missense_Mutation	SNP	G	A	A	rs145041715		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:526892G>A	uc002frn.2	-	11	1144	c.997C>T	c.(997-999)CGT>TGT	p.R333C	VPS53_uc002frk.2_5'UTR|VPS53_uc010cjo.1_Missense_Mutation_p.R333C|VPS53_uc002frl.2_RNA|VPS53_uc002frm.2_Missense_Mutation_p.R304C|VPS53_uc002fro.2_Missense_Mutation_p.R135C|VPS53_uc010cjp.1_Intron	NM_018289	NP_060759	Q5VIR6	VPS53_HUMAN	vacuolar protein sorting 53 isoform 2	333					protein transport	endosome membrane|Golgi apparatus					0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0265)		GCTCTGGTACGCATAATCTTG	0.393													12	40					0	0	0.002450	0	0	
GEMIN4	50628	broad.mit.edu	37	17	650203	650203	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:650203C>T	uc002frs.1	-	2	1199	c.1080G>A	c.(1078-1080)ACG>ACA	p.T360T	GEMIN4_uc010vqa.1_3'UTR	NM_015721	NP_056536	P57678	GEMI4_HUMAN	gemin 4	360					rRNA processing|spliceosomal snRNP assembly	Cajal body|cytosol|nucleolus|small nuclear ribonucleoprotein complex|spliceosomal complex	protein binding			ovary(2)|kidney(1)|skin(1)	4		Myeloproliferative disorder(207;0.204)		UCEC - Uterine corpus endometrioid carcinoma (25;0.022)		TCAGGTAGAGCGTCGCGTTCT	0.627													14	31					0	0	0.001855	0	0	
RNMTL1	55178	broad.mit.edu	37	17	694821	694821	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:694821G>A	uc002frw.2	+	4	881	c.775G>A	c.(775-777)GCA>ACA	p.A259T		NM_018146	NP_060616	Q9HC36	RMTL1_HUMAN	RNA methyltransferase like 1	259					RNA processing		protein binding|RNA binding|RNA methyltransferase activity			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0219)		GGGTATGGGCGCACATTTCCG	0.522													11	36					0	0	0.001368	0	0	
TIMM22	29928	broad.mit.edu	37	17	902137	902137	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:902137G>A	uc002fsc.2	+	2	383	c.357G>A	c.(355-357)GGG>GGA	p.G119G		NM_013337	NP_037469	Q9Y584	TIM22_HUMAN	translocase of inner mitochondrial membrane 22	119					transmembrane transport	integral to membrane|mitochondrial inner membrane	protein transporter activity				0				UCEC - Uterine corpus endometrioid carcinoma (25;0.022)		AAGACATGGGGCAGAGAGGAA	0.468													7	142					0	0	0.001984	0	0	
ABR	29	broad.mit.edu	37	17	1028590	1028590	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:1028590C>T	uc002fsd.2	-	2	284	c.174G>A	c.(172-174)CCG>CCA	p.P58P	ABR_uc002fse.2_Silent_p.P12P|ABR_uc010cjq.1_Silent_p.P70P	NM_021962	NP_068781	Q12979	ABR_HUMAN	active breakpoint cluster region-related	58					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			upper_aerodigestive_tract(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0228)		CGCTGAGCTGCGGGGACATGG	0.667													13	25					0	0	0.002450	0	0	
ABR	29	broad.mit.edu	37	17	1028600	1028600	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:1028600G>A	uc002fsd.2	-	2	274	c.164C>T	c.(163-165)ACC>ATC	p.T55I	ABR_uc002fse.2_Missense_Mutation_p.T9I|ABR_uc010cjq.1_Missense_Mutation_p.T67I	NM_021962	NP_068781	Q12979	ABR_HUMAN	active breakpoint cluster region-related	55					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			upper_aerodigestive_tract(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0228)		CGGGGACATGGTGGGCGACTC	0.667													5	37					0	0	0.000602	0	0	
WDR81	124997	broad.mit.edu	37	17	1634494	1634494	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:1634494C>T	uc002fti.2	+	4	679	c.418C>T	c.(418-420)CGG>TGG	p.R140W	WDR81_uc002fth.2_Missense_Mutation_p.R316W|WDR81_uc010vqp.1_Missense_Mutation_p.R164W|WDR81_uc002ftj.2_Missense_Mutation_p.R1367W|WDR81_uc010vqq.1_Intron	NM_001163811	NP_001157283	Q562E7	WDR81_HUMAN	WD repeat domain 81 isoform 4	140										skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		CATCCTGCCCCGGATCAGCCA	0.632													4	24					0	0	0.009096	0	0	
WDR81	124997	broad.mit.edu	37	17	1636038	1636038	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:1636038G>A	uc002fti.2	+	6	982	c.721G>A	c.(721-723)GTG>ATG	p.V241M	WDR81_uc002fth.2_Missense_Mutation_p.V417M|WDR81_uc010vqp.1_Missense_Mutation_p.V265M|WDR81_uc002ftj.2_Missense_Mutation_p.V1468M|WDR81_uc010vqq.1_Missense_Mutation_p.V99M	NM_001163811	NP_001157283	Q562E7	WDR81_HUMAN	WD repeat domain 81 isoform 4	241										skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		GCAGCGGCCCGTGGACCCCGC	0.632													9	7					0	0	0.000978	0	0	
SMYD4	114826	broad.mit.edu	37	17	1703996	1703996	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:1703996G>A	uc002ftm.3	-	5	860	c.692C>T	c.(691-693)GCC>GTC	p.A231V	SMYD4_uc002ftn.1_Missense_Mutation_p.A86V	NM_052928	NP_443160	Q8IYR2	SMYD4_HUMAN	SET and MYND domain containing 4	231							zinc ion binding			skin(3)|kidney(2)	5						GGATGATGAGGCATTGGAAAG	0.502													7	143					0	0	0.003080	0	0	
SMG6	23293	broad.mit.edu	37	17	1964860	1964860	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:1964860G>A	uc002fub.1	-	19	4241	c.4186C>T	c.(4186-4188)CGT>TGT	p.R1396C	SMG6_uc010vqv.1_Missense_Mutation_p.R488C	NM_017575	NP_060045	Q86US8	EST1A_HUMAN	Smg-6 homolog, nonsense mediated mRNA decay	1396	PINc.				mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation|telomere maintenance	chromosome, telomeric region|cytosol|nucleolus|telomerase holoenzyme complex	endoribonuclease activity|metal ion binding|protein binding|telomeric DNA binding			central_nervous_system(2)|lung(1)|kidney(1)	4						GCCTTCACACGCAGGTTCCGG	0.642													3	2					0	0	0.004672	0	0	
SMG6	23293	broad.mit.edu	37	17	2202208	2202208	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:2202208C>T	uc002fub.1	-	2	1894	c.1839G>A	c.(1837-1839)GCG>GCA	p.A613A	SMG6_uc002fud.1_Silent_p.A582A	NM_017575	NP_060045	Q86US8	EST1A_HUMAN	Smg-6 homolog, nonsense mediated mRNA decay	613	Potential.				mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation|telomere maintenance	chromosome, telomeric region|cytosol|nucleolus|telomerase holoenzyme complex	endoribonuclease activity|metal ion binding|protein binding|telomeric DNA binding			central_nervous_system(2)|lung(1)|kidney(1)	4						ACCTGAGTTGCGCCATCTTCT	0.552													14	166					0	0	0.004007	0	0	
RAP1GAP2	23108	broad.mit.edu	37	17	2898752	2898752	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:2898752G>A	uc010ckd.2	+	13	1126	c.1036G>A	c.(1036-1038)GCC>ACC	p.A346T	RAP1GAP2_uc010cke.2_Missense_Mutation_p.A331T	NM_015085	NP_055900	Q684P5	RPGP2_HUMAN	RAP1 GTPase activating protein 2 isoform 1	346	Rap-GAP.				regulation of small GTPase mediated signal transduction	centrosome|cytosol|perinuclear region of cytoplasm	GTPase activator activity			ovary(1)	1						CGACGGAGACGCCCAGCAGGT	0.607													15	27					0	0	0.002450	0	0	
OR1G1	8390	broad.mit.edu	37	17	3030350	3030350	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:3030350G>A	uc002fvc.1	-	1	496	c.496C>T	c.(496-498)CTG>TTG	p.L166L		NM_003555	NP_003546	P47890	OR1G1_HUMAN	olfactory receptor, family 1, subfamily G,	166	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CAGAAGGACAGGCTGTTCATC	0.522													41	84					0	0	0.007835	0	0	
OR3A2	4995	broad.mit.edu	37	17	3181297	3181297	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:3181297C>T	uc002fvg.2	-	1	972	c.933G>A	c.(931-933)TGG>TGA	p.W311*		NM_002551	NP_002542	P47893	OR3A2_HUMAN	olfactory receptor, family 3, subfamily A,	311	Cytoplasmic (Potential).				sensory perception of smell	integral to plasma membrane	olfactory receptor activity			ovary(1)	1						AAAATATTTGCCACAGAGCAC	0.463													20	54					0	0	0.002780	0	0	
OR3A3	8392	broad.mit.edu	37	17	3324325	3324325	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:3324325C>A	uc010vrd.1	+	1	464	c.464C>A	c.(463-465)GCT>GAT	p.A155D		NM_012373	NP_036505	P47888	OR3A3_HUMAN	olfactory receptor, family 3, subfamily A,	155	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ATGTTGGTGGCTGCGTCCTGG	0.587													28	74					2.05212e-20	2.2485e-20	0.005524	1	0	
OR1E2	8388	broad.mit.edu	37	17	3336709	3336709	+	Missense_Mutation	SNP	C	T	T	rs112466079		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:3336709C>T	uc010vre.1	-	1	427	c.427G>A	c.(427-429)GCC>ACC	p.A143T		NM_003554	NP_003545	P47887	OR1E2_HUMAN	olfactory receptor, family 1, subfamily E,	143	Cytoplasmic (Potential).				sensory perception of smell	integral to plasma membrane	olfactory receptor activity			large_intestine(1)	1						CTCATGATGGCGGTGTAGTGC	0.572													14	25					0	0	0.002450	0	0	
TRPV1	7442	broad.mit.edu	37	17	3476959	3476959	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:3476959C>T	uc010vrr.1	-	12	2598	c.2071G>A	c.(2071-2073)GCA>ACA	p.A691T	TRPV1_uc010vro.1_Missense_Mutation_p.A702T|TRPV1_uc010vrp.1_Missense_Mutation_p.A631T|TRPV1_uc010vrq.1_Missense_Mutation_p.A689T|TRPV1_uc010vrs.1_Missense_Mutation_p.A691T|TRPV1_uc010vrt.1_Missense_Mutation_p.A691T|TRPV1_uc010vru.1_Missense_Mutation_p.A691T	NM_080706	NP_542437	Q8NER1	TRPV1_HUMAN	transient receptor potential cation channel,	691	AD (By similarity).|Cytoplasmic (Potential).				cell surface receptor linked signaling pathway|chemosensory behavior|thermoception	cell junction|dendritic spine membrane|integral to plasma membrane|postsynaptic membrane	ATP binding|calcium channel activity|calmodulin binding			ovary(1)	1				Lung(1;0.055)|COAD - Colon adenocarcinoma(5;0.0896)|LUAD - Lung adenocarcinoma(1115;0.131)	Alpha-Linolenic Acid(DB00132)|Aspartame(DB00168)|Icosapent(DB00159)	CTCTCCTGTGCGATCTTGTTG	0.567													5	38					0	0	0.001168	0	0	
TRPV1	7442	broad.mit.edu	37	17	3489183	3489183	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:3489183C>T	uc010vrr.1	-	7	1789	c.1262G>A	c.(1261-1263)CGA>CAA	p.R421Q	TRPV1_uc010vro.1_Missense_Mutation_p.R432Q|TRPV1_uc010vrp.1_Missense_Mutation_p.R361Q|TRPV1_uc010vrq.1_Missense_Mutation_p.R419Q|TRPV1_uc010vrs.1_Missense_Mutation_p.R421Q|TRPV1_uc010vrt.1_Missense_Mutation_p.R421Q|TRPV1_uc010vru.1_Missense_Mutation_p.R421Q	NM_080706	NP_542437	Q8NER1	TRPV1_HUMAN	transient receptor potential cation channel,	421	Cytoplasmic (Potential).				cell surface receptor linked signaling pathway|chemosensory behavior|thermoception	cell junction|dendritic spine membrane|integral to plasma membrane|postsynaptic membrane	ATP binding|calcium channel activity|calmodulin binding			ovary(1)	1				Lung(1;0.055)|COAD - Colon adenocarcinoma(5;0.0896)|LUAD - Lung adenocarcinoma(1115;0.131)	Alpha-Linolenic Acid(DB00132)|Aspartame(DB00168)|Icosapent(DB00159)	CTGCAGGAGTCGGTTCAGCGG	0.567													12	21					0	0	0.001855	0	0	
ITGAE	3682	broad.mit.edu	37	17	3665218	3665218	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:3665218G>A	uc002fwo.3	-	4	405	c.306C>T	c.(304-306)CAC>CAT	p.H102H		NM_002208	NP_002199	P38570	ITAE_HUMAN	integrin, alpha E precursor	102	FG-GAP 2.|Extracellular (Potential).				cell adhesion|integrin-mediated signaling pathway	integrin complex	receptor activity			large_intestine(2)|breast(1)|pancreas(1)	4				UCEC - Uterine corpus endometrioid carcinoma (3;0.0813)		CCAAAACACCGTGGTGGCTCC	0.617													8	23					0	0	0.003080	0	0	
CAMKK1	84254	broad.mit.edu	37	17	3773157	3773157	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:3773157C>T	uc002fwt.2	-	13	1244	c.1150G>A	c.(1150-1152)GAC>AAC	p.D384N	CAMKK1_uc002fwu.2_Missense_Mutation_p.D384N|CAMKK1_uc002fwv.2_Missense_Mutation_p.D422N	NM_172206	NP_757343	Q8N5S9	KKCC1_HUMAN	calcium/calmodulin-dependent protein kinase 1	384	Protein kinase.				synaptic transmission	cytosol|nucleus	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(1)	1				LUAD - Lung adenocarcinoma(2;2.11e-05)|Lung(3;0.0176)		AGGATCAGGTCCTTGAGCTCC	0.587													15	41					0	0	0.008871	0	0	
PLD2	5338	broad.mit.edu	37	17	4713066	4713066	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:4713066G>A	uc002fzc.2	+	8	796	c.695G>A	c.(694-696)CGC>CAC	p.R232H	PLD2_uc010vsj.1_Missense_Mutation_p.R89H|PLD2_uc002fzd.2_Missense_Mutation_p.R232H	NM_002663	NP_002654	O14939	PLD2_HUMAN	phospholipase D2	232	PH.				cell communication|cytoskeleton organization|small GTPase mediated signal transduction		NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	5					Choline(DB00122)	GTTTGTTATCGCTGGTCCAAG	0.592													21	56					0	0	0.003954	0	0	
PLD2	5338	broad.mit.edu	37	17	4718853	4718853	+	Missense_Mutation	SNP	C	T	T	rs143765886	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:4718853C>T	uc002fzc.2	+	13	1357	c.1256C>T	c.(1255-1257)GCG>GTG	p.A419V	PLD2_uc010vsj.1_Missense_Mutation_p.A276V|PLD2_uc002fzd.2_Missense_Mutation_p.A419V	NM_002663	NP_002654	O14939	PLD2_HUMAN	phospholipase D2	419					cell communication|cytoskeleton organization|small GTPase mediated signal transduction		NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	5					Choline(DB00122)	AGCAAGAGGGCGCTGATGCTG	0.577											OREG0024105	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	46	116					0	0	0.003610	0	0	
KIF1C	10749	broad.mit.edu	37	17	4917019	4917019	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:4917019C>T	uc002gan.1	+	17	1889	c.1563C>T	c.(1561-1563)GGC>GGT	p.G521G		NM_006612	NP_006603	O43896	KIF1C_HUMAN	kinesin family member 1C	521					microtubule-based movement|retrograde vesicle-mediated transport, Golgi to ER	endoplasmic reticulum|Golgi apparatus|microtubule	ATP binding|microtubule motor activity			breast(2)	2						TCAAAGATGGCGTCACCAGGT	0.597													5	25					0	0	0.001984	0	0	
USP6	9098	broad.mit.edu	37	17	5041523	5041523	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:5041523T>G	uc002gau.1	+	21	3263	c.1033T>G	c.(1033-1035)TCT>GCT	p.S345A	USP6_uc002gav.1_Missense_Mutation_p.S345A|USP6_uc010ckz.1_5'UTR|uc002gbd.2_5'Flank	NM_004505	NP_004496	P35125	UBP6_HUMAN	ubiquitin specific protease 6	345					protein deubiquitination|regulation of vesicle-mediated transport|ubiquitin-dependent protein catabolic process	lysosome|plasma membrane|recycling endosome	calmodulin binding|cysteine-type endopeptidase activity|nucleic acid binding|protein binding|Rab GTPase activator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)	5						TCTTAGGGCCTCTACGAAGAA	0.572			T	COL1A1|CDH11|ZNF9|OMD	aneurysmal bone cysts								9	108					0	0	0.006214	0	0	
RABEP1	9135	broad.mit.edu	37	17	5264580	5264580	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:5264580T>C	uc002gbm.3	+	9	1397	c.1173T>C	c.(1171-1173)AGT>AGC	p.S391S	RABEP1_uc010clc.1_Silent_p.S384S|RABEP1_uc010cld.1_Silent_p.S348S|RABEP1_uc010vsw.1_Silent_p.S348S|RABEP1_uc002gbl.3_Silent_p.S391S|NUP88_uc002gbn.2_RNA	NM_004703	NP_004694	Q15276	RABE1_HUMAN	rabaptin, RAB GTPase binding effector protein 1	391					apoptosis|cellular membrane fusion|endocytosis|protein transport	centrosome|early endosome|endocytic vesicle|recycling endosome	growth factor activity|GTPase activator activity|protein homodimerization activity			large_intestine(1)|ovary(1)	2						ATCCTTTCAGTAAATCGGACA	0.453													3	60					0	0	0.004672	0	0	
RABEP1	9135	broad.mit.edu	37	17	5264866	5264866	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:5264866G>T	uc002gbm.3	+	9	1683	c.1459G>T	c.(1459-1461)GCG>TCG	p.A487S	RABEP1_uc010clc.1_Missense_Mutation_p.A480S|RABEP1_uc010cld.1_Missense_Mutation_p.A444S|RABEP1_uc010vsw.1_Missense_Mutation_p.A444S|RABEP1_uc002gbl.3_Missense_Mutation_p.A487S|NUP88_uc002gbn.2_RNA	NM_004703	NP_004694	Q15276	RABE1_HUMAN	rabaptin, RAB GTPase binding effector protein 1	487					apoptosis|cellular membrane fusion|endocytosis|protein transport	centrosome|early endosome|endocytic vesicle|recycling endosome	growth factor activity|GTPase activator activity|protein homodimerization activity			large_intestine(1)|ovary(1)	2						AGAAGAGACAGCGTCCCTCCT	0.483													24	66					3.6726e-16	4.00306e-16	0.003954	1	0	
RABEP1	9135	broad.mit.edu	37	17	5280477	5280477	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:5280477G>A	uc002gbm.3	+	14	2316	c.2092G>A	c.(2092-2094)GTA>ATA	p.V698I	RABEP1_uc010clc.1_Missense_Mutation_p.V691I|RABEP1_uc010cld.1_Missense_Mutation_p.V655I|RABEP1_uc010vsw.1_Missense_Mutation_p.V655I|RABEP1_uc002gbl.3_Missense_Mutation_p.V698I|NUP88_uc002gbn.2_Intron	NM_004703	NP_004694	Q15276	RABE1_HUMAN	rabaptin, RAB GTPase binding effector protein 1	698	Potential.				apoptosis|cellular membrane fusion|endocytosis|protein transport	centrosome|early endosome|endocytic vesicle|recycling endosome	growth factor activity|GTPase activator activity|protein homodimerization activity			large_intestine(1)|ovary(1)	2						AGCAGACCACGTAGAAGAAAA	0.398													55	118					0	0	0.003610	0	0	
NUP88	4927	broad.mit.edu	37	17	5312224	5312224	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:5312224G>A	uc002gbo.1	-	5	712	c.686C>T	c.(685-687)GCG>GTG	p.A229V	NUP88_uc010vsx.1_Missense_Mutation_p.A229V|NUP88_uc010cle.1_Missense_Mutation_p.A228V|NUP88_uc010vsy.1_Missense_Mutation_p.A229V	NM_002532	NP_002523	Q99567	NUP88_HUMAN	nucleoporin 88kDa	229					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	transporter activity			kidney(1)	1						TGCGGTATACGCCCTTCTGGA	0.303													13	40					0	0	0.002450	0	0	
DHX33	56919	broad.mit.edu	37	17	5364373	5364373	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:5364373G>A	uc002gca.2	-	4	737	c.735C>T	c.(733-735)GGC>GGT	p.G245G	DHX33_uc002gbz.2_Silent_p.G16G|DHX33_uc002gcb.2_Silent_p.G72G|DHX33_uc010clf.2_Intron	NM_020162	NP_064547	Q9H6R0	DHX33_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 33	245	Helicase ATP-binding.					nucleolus	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(1)|pancreas(1)	2						GGACGGGGGCGCCATTGAAAT	0.517													14	90					0	0	0.004007	0	0	
DHX33	56919	broad.mit.edu	37	17	5365851	5365851	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:5365851G>A	uc002gca.2	-	3	468	c.466C>T	c.(466-468)CGC>TGC	p.R156C	DHX33_uc002gbz.2_5'Flank|DHX33_uc002gcb.2_5'UTR|DHX33_uc010clf.2_Intron	NM_020162	NP_064547	Q9H6R0	DHX33_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 33	156	Helicase ATP-binding.					nucleolus	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(1)|pancreas(1)	2						TCATCAAAGCGCACTGTATAG	0.303													7	80					0	0	0.006214	0	0	
NLRP1	22861	broad.mit.edu	37	17	5436264	5436264	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:5436264G>A	uc002gci.2	-	11	3729	c.3174C>T	c.(3172-3174)TGC>TGT	p.C1058C	NLRP1_uc002gcg.1_Silent_p.C1062C|NLRP1_uc002gck.2_Silent_p.C1058C|NLRP1_uc002gcj.2_Silent_p.C1028C|NLRP1_uc002gcl.2_Silent_p.C1028C|NLRP1_uc002gch.3_Silent_p.C1058C|NLRP1_uc010clh.2_Silent_p.C1058C	NM_033004	NP_127497	Q9C000	NALP1_HUMAN	NLR family, pyrin domain containing 1 isoform 1	1058					defense response to bacterium|induction of apoptosis|neuron apoptosis|positive regulation of interleukin-1 beta secretion|response to muramyl dipeptide	cytoplasm|NALP1 inflammasome complex|nucleus	ATP binding|caspase activator activity|enzyme binding|protein domain specific binding			lung(4)|breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	9		Colorectal(1115;3.48e-05)				GAGAAGGCACGCACAAGAGTT	0.607													6	27					0	0	0.001168	0	0	
WSCD1	23302	broad.mit.edu	37	17	6023723	6023723	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:6023723C>T	uc010cli.2	+	9	1849	c.1470C>T	c.(1468-1470)TAC>TAT	p.Y490Y	WSCD1_uc002gcn.2_Silent_p.Y490Y|WSCD1_uc002gco.2_Silent_p.Y490Y|WSCD1_uc010clj.2_Silent_p.Y181Y	NM_015253	NP_056068	Q658N2	WSCD1_HUMAN	WSC domain containing 1	490						integral to membrane	sulfotransferase activity				0						TGGTGCACTACGAGGAGCTGC	0.627													20	56					0	0	0.002780	0	0	
PITPNM3	83394	broad.mit.edu	37	17	6358942	6358942	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:6358942C>T	uc002gdd.3	-	20	2792	c.2641G>A	c.(2641-2643)GCA>ACA	p.A881T	PITPNM3_uc010cln.2_Missense_Mutation_p.A845T|PITPNM3_uc010clm.2_Missense_Mutation_p.A364T|PITPNM3_uc002gdc.3_Missense_Mutation_p.A472T	NM_031220	NP_112497	Q9BZ71	PITM3_HUMAN	PITPNM family member 3 isoform 1	881					phosphatidylinositol metabolic process	endomembrane system|integral to membrane	calcium ion binding|lipid binding|phosphatidylinositol transporter activity|receptor tyrosine kinase binding			ovary(2)|central_nervous_system(2)	4				Colorectal(2;0.000372)|READ - Rectum adenocarcinoma(2;0.0276)|LUAD - Lung adenocarcinoma(2;0.0836)|COAD - Colon adenocarcinoma(228;0.185)		GCCAGGTGTGCGGCGTAGCCC	0.428													7	8					0	0	0.001984	0	0	
KIAA0753	9851	broad.mit.edu	37	17	6511780	6511780	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:6511780C>T	uc002gde.3	-	10	2076	c.1717G>A	c.(1717-1719)GCA>ACA	p.A573T	KIAA0753_uc010vtd.1_Missense_Mutation_p.A29T|KIAA0753_uc010clo.2_Missense_Mutation_p.A274T|KIAA0753_uc010vte.1_Missense_Mutation_p.A274T	NM_014804	NP_055619	Q2KHM9	K0753_HUMAN	hypothetical protein LOC9851	573						centrosome					0				COAD - Colon adenocarcinoma(228;0.157)		TTTAGCCATGCAGCACTGAAA	0.458													30	127					0	0	0.009535	0	0	
TXNDC17	84817	broad.mit.edu	37	17	6544532	6544532	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:6544532C>T	uc002gdf.3	+	1	311	c.130C>T	c.(130-132)CCC>TCC	p.P44S	KIAA0753_uc002gde.3_5'Flank|KIAA0753_uc010vte.1_5'Flank	NM_032731	NP_116120	Q9BRA2	TXD17_HUMAN	thioredoxin-like 5	44	Thioredoxin.	Contributes to redox potential value.			tumor necrosis factor-mediated signaling pathway	cytosol	electron carrier activity|peroxidase activity|protein binding|protein-disulfide reductase activity			ovary(1)	1						AAGCTGGTGCCCCGACTGCGT	0.627													11	22					0	0	0.002450	0	0	
BCL6B	255877	broad.mit.edu	37	17	6927806	6927806	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:6927806G>A	uc002geg.2	+	4	545	c.488G>A	c.(487-489)CGC>CAC	p.R163H	BCL6B_uc010clt.1_Missense_Mutation_p.R163H	NM_181844	NP_862827	Q8N143	BCL6B_HUMAN	B-cell CLL/lymphoma 6, member B (zinc finger	163	Pro-rich.					nucleus	zinc ion binding			skin(1)	1						AGTCCCAGGCGCTCCGAAGGA	0.632													15	53					0	0	0.004990	0	0	
NEURL4	84461	broad.mit.edu	37	17	7226176	7226176	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:7226176G>A	uc002gga.1	-	16	2610	c.2603C>T	c.(2602-2604)GCG>GTG	p.A868V	NEURL4_uc002ggb.1_Missense_Mutation_p.A866V|NEURL4_uc002ggc.1_Missense_Mutation_p.A214V	NM_032442	NP_115818	Q96JN8	NEUL4_HUMAN	neuralized homolog 4 isoform 1	868	NHR 4.						protein binding			upper_aerodigestive_tract(1)|ovary(1)	2						ATCGACTACCGCATACACCTC	0.597													17	56					0	0	0.003954	0	0	
NEURL4	84461	broad.mit.edu	37	17	7228773	7228773	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:7228773C>T	uc002gga.1	-	8	1393	c.1386G>A	c.(1384-1386)ACG>ACA	p.T462T	NEURL4_uc002ggb.1_Silent_p.T462T|NEURL4_uc002ggc.1_5'UTR	NM_032442	NP_115818	Q96JN8	NEUL4_HUMAN	neuralized homolog 4 isoform 1	462	NHR 2.						protein binding			upper_aerodigestive_tract(1)|ovary(1)	2						CCACTGGGGGCGTCAAGGGGG	0.582													7	21					0	0	0.006214	0	0	
CHRNB1	1140	broad.mit.edu	37	17	7350413	7350413	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:7350413C>T	uc002ghb.2	+	5	446	c.405C>T	c.(403-405)TCC>TCT	p.S135S	CHRNB1_uc010vty.1_Silent_p.S63S|CHRNB1_uc010vtz.1_5'UTR	NM_000747	NP_000738	P11230	ACHB_HUMAN	nicotinic acetylcholine receptor beta 1 subunit	135	Extracellular (Potential).				behavioral response to nicotine|muscle contraction|muscle fiber development|neuromuscular synaptic transmission|postsynaptic membrane organization|regulation of membrane potential|synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine binding|receptor activity			ovary(2)	2		Prostate(122;0.157)				TGGTGTCCTCCGACGGCTCCG	0.502													11	25					0	0	0.001855	0	0	
POLR2A	5430	broad.mit.edu	37	17	7401440	7401440	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:7401440G>A	uc002ghf.3	+	8	1480	c.1246G>A	c.(1246-1248)GCC>ACC	p.A416T	POLR2A_uc002ghe.2_Missense_Mutation_p.A416T	NM_000937	NP_000928	P24928	RPB1_HUMAN	DNA-directed RNA polymerase II A	416					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|RNA-directed RNA polymerase activity|ubiquitin protein ligase binding			pancreas(1)	1		Prostate(122;0.173)				GTACCCAGGCGCCAAGTACAT	0.532													13	28					0	0	0.004007	0	0	
POLR2A	5430	broad.mit.edu	37	17	7406984	7406984	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:7406984G>A	uc002ghf.3	+	19	3348	c.3114G>A	c.(3112-3114)ACG>ACA	p.T1038T		NM_000937	NP_000928	P24928	RPB1_HUMAN	DNA-directed RNA polymerase II A	1038					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|RNA-directed RNA polymerase activity|ubiquitin protein ligase binding			pancreas(1)	1		Prostate(122;0.173)				AAAATGCCACGCTGCTCTTCA	0.562													4	34					0	0	0.001168	0	0	
TP53	7157	broad.mit.edu	37	17	7577548	7577548	+	Missense_Mutation	SNP	C	G	G	rs28934575		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:7577548C>G	uc002gim.2	-	7	927	c.733G>C	c.(733-735)GGC>CGC	p.G245R	TP53_uc002gig.1_Missense_Mutation_p.G245R|TP53_uc002gih.2_Missense_Mutation_p.G245R|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.G113R|TP53_uc010cng.1_Missense_Mutation_p.G113R|TP53_uc002gii.1_Missense_Mutation_p.G113R|TP53_uc010cnh.1_Missense_Mutation_p.G245R|TP53_uc010cni.1_Missense_Mutation_p.G245R|TP53_uc002gij.2_Missense_Mutation_p.G245R|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.G152R|TP53_uc002gio.2_Missense_Mutation_p.G113R	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	245	|Interaction with HIPK1 (By similarity).|Interacts with the 53BP2 SH3 domain.|Interaction with AXIN1 (By similarity).		G -> N (in sporadic cancers; somatic mutation; requires 2 nucleotide substitutions).|G -> A (in sporadic cancers; somatic mutation).|G -> V (in LFS; germline mutation and in sporadic cancers; somatic mutation).|G -> F (in sporadic cancers; somatic mutation; requires 2 nucleotide substitutions).|G -> R (in sporadic cancers; somatic mutation).|G -> E (in a sporadic cancer; somatic mutation).|G -> D (in LFS; germline mutation and in sporadic cancers; somatic mutation).|G -> H (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|G -> L (in sporadic cancers; somatic mutation; requires 2 nucleotide substitutions).|G -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.G245S(274)|p.G245D(93)|p.G245V(50)|p.G245C(47)|p.G245R(10)|p.G245A(8)|p.0?(7)|p.G245G(3)|p.G245fs*2(3)|p.G245N(2)|p.G245H(1)|p.G245L(1)|p.G244fs*17(1)|p.G245F(1)|p.G245E(1)|p.C242_M246>L(1)|p.C238_M246delCNSSCMGGM(1)|p.S241_G245delSCMGG(1)|p.C242fs*98(1)|p.G245fs*22(1)|p.M243fs*18(1)|p.G245del(1)|p.G245fs*14(1)|p.G245fs*17(1)|p.G245fs*16(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		CGGTTCATGCCGCCCATGCAG	0.577	G245S(SKLMS1_SOFT_TISSUE)|G245S(LS1034_LARGE_INTESTINE)|G245S(NUGC2_STOMACH)|G245S(PANC0403_PANCREAS)|G245S(SKMEL2_SKIN)	111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			12	31					0	0	0.001855	0	0	
WRAP53	55135	broad.mit.edu	37	17	7604990	7604990	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:7604990G>A	uc010vuh.1	+	7	993	c.838G>A	c.(838-840)GCC>ACC	p.A280T	WRAP53_uc010vui.1_Missense_Mutation_p.A280T|WRAP53_uc002gip.2_Missense_Mutation_p.A280T|WRAP53_uc002gir.2_Missense_Mutation_p.A280T|WRAP53_uc002giq.2_RNA|WRAP53_uc010cnl.2_Missense_Mutation_p.A247T|WRAP53_uc010vuj.1_Missense_Mutation_p.A61T	NM_001143990	NP_001137462	Q9BUR4	WAP53_HUMAN	WD repeat domain 79 isoform 2	280	WD 3.				positive regulation of telomerase activity|telomere formation via telomerase	Cajal body|cytoplasm|telomerase holoenzyme complex	protein binding|RNA binding				0						GCTGACGGCAGCCCATTCGCT	0.617													5	65					0	0	0.001168	0	0	
DNAH2	146754	broad.mit.edu	37	17	7646274	7646274	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:7646274G>A	uc002giu.1	+	11	1732	c.1718G>A	c.(1717-1719)CGT>CAT	p.R573H	DNAH2_uc002git.2_Missense_Mutation_p.R655H|DNAH2_uc010vuk.1_Missense_Mutation_p.R573H	NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	573	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				TTCCTGCCCCGTATTGGGACT	0.562													9	31					0	0	0.006214	0	0	
DNAH2	146754	broad.mit.edu	37	17	7661926	7661926	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:7661926C>T	uc002giu.1	+	13	2179	c.2165C>T	c.(2164-2166)GCC>GTC	p.A722V		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	722	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				TTGAAGGGGGCCAGTGCCTTC	0.542													17	68					0	0	0.006122	0	0	
KDM6B	23135	broad.mit.edu	37	17	7751760	7751760	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:7751760C>T	uc002giw.1	+	11	2530	c.2154C>T	c.(2152-2154)GGC>GGT	p.G718G	KDM6B_uc002gix.2_Silent_p.G20G	NM_001080424	NP_001073893	O15054	KDM6B_HUMAN	lysine (K)-specific demethylase 6B	718	Pro-rich.				inflammatory response	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			central_nervous_system(1)|pancreas(1)	2						ACGAAGCAGGCGTGGCCCCCC	0.577													15	53					0	0	0.002450	0	0	
CHD3	1107	broad.mit.edu	37	17	7812021	7812021	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:7812021C>T	uc002gje.2	+	36	5418	c.5268C>T	c.(5266-5268)GGC>GGT	p.G1756G	CHD3_uc002gjd.2_Silent_p.G1815G|CHD3_uc002gjf.2_Silent_p.G1722G|CHD3_uc002gjh.2_Silent_p.G333G|CHD3_uc002gjj.2_5'Flank	NM_001005273	NP_001005273	Q12873	CHD3_HUMAN	chromodomain helicase DNA binding protein 3	1756	Required for interaction with PCNT.				chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|zinc ion binding			breast(1)	1		Prostate(122;0.202)				GTAGCCATGGCTATGCACGGT	0.438													14	171					0	0	0.006122	0	0	
KCNAB3	9196	broad.mit.edu	37	17	7826435	7826435	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:7826435C>T	uc002gjm.1	-	14	1200	c.1200G>A	c.(1198-1200)CCG>CCA	p.P400P	KCNAB3_uc010vul.1_RNA	NM_004732	NP_004723	O43448	KCAB3_HUMAN	potassium voltage-gated channel, shaker-related	400						cytoplasm|integral to membrane	oxidoreductase activity|potassium channel regulator activity|voltage-gated potassium channel activity			ovary(1)	1		Prostate(122;0.157)				TCTTGGAATGCGGCTTGTTTC	0.677													7	20					0	0	0.002450	0	0	
C17orf68	80169	broad.mit.edu	37	17	8141902	8141902	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:8141902G>A	uc002gkq.3	-	3	302	c.243C>T	c.(241-243)TGC>TGT	p.C81C	C17orf68_uc010cnv.2_RNA	NM_025099	NP_079375	Q2NKJ3	CTC1_HUMAN	alpha accessory factor 132	81					positive regulation of DNA replication|telomere maintenance	Stn1-Ten1 complex	protein binding|single-stranded DNA binding				0						GGTGGCTGCAGCATGGGAGAC	0.577													18	41					0	0	0.003954	0	0	
MYH10	4628	broad.mit.edu	37	17	8526285	8526285	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:8526285T>C	uc002gll.2	-	2	376	c.280A>G	c.(280-282)ACA>GCA	p.T94A	MYH10_uc002glm.2_Missense_Mutation_p.T94A|MYH10_uc010cnx.2_Missense_Mutation_p.T94A	NM_005964	NP_005955	P35580	MYH10_HUMAN	myosin, heavy polypeptide 10, non-muscle	94	Myosin head-like.				actin filament-based movement|axon guidance|cytokinesis after mitosis|regulation of cell shape	cell cortex|cleavage furrow|midbody|myosin complex|stress fiber	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(2)	2						TTCAAGCATGTCAATTCTGCC	0.383													41	96					0	0	0.006230	0	0	
PIK3R5	23533	broad.mit.edu	37	17	8789551	8789551	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:8789551G>A	uc002glt.2	-	14	2190	c.2123C>T	c.(2122-2124)GCG>GTG	p.A708V	PIK3R5_uc010vuz.1_Missense_Mutation_p.A708V|PIK3R5_uc002glu.3_Missense_Mutation_p.A322V	NM_014308	NP_055123	Q8WYR1	PI3R5_HUMAN	phosphoinositide-3-kinase, regulatory subunit 5	708	Interaction with G beta gamma proteins (By similarity).				platelet activation	cytosol|membrane|nucleus				breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						CCCACCTGACGCCTTGATGGC	0.627													9	17					0	0	0.006214	0	0	
PIK3R5	23533	broad.mit.edu	37	17	8791611	8791611	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:8791611C>T	uc002glt.2	-	10	1560	c.1493G>A	c.(1492-1494)CGC>CAC	p.R498H	PIK3R5_uc010vuz.1_Missense_Mutation_p.R498H|PIK3R5_uc002glu.3_Missense_Mutation_p.R112H|PIK3R5_uc010coa.1_3'UTR|PIK3R5_uc010cob.1_Missense_Mutation_p.R112H	NM_014308	NP_055123	Q8WYR1	PI3R5_HUMAN	phosphoinositide-3-kinase, regulatory subunit 5	498					platelet activation	cytosol|membrane|nucleus				breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						GCGCTGGGGGCGTGAAGCAGG	0.657													9	15					0	0	0.006214	0	0	
NTN1	9423	broad.mit.edu	37	17	8926018	8926018	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:8926018G>A	uc002glw.3	+	2	435	c.328G>A	c.(328-330)GAC>AAC	p.D110N		NM_004822	NP_004813	O95631	NET1_HUMAN	netrin 1 precursor	110	Laminin N-terminal.				apoptosis|axon guidance		protein binding				0						CTTCCTCACCGACCTCAACAA	0.652													5	12					0	0	0.001168	0	0	
USP43	124739	broad.mit.edu	37	17	9559771	9559771	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:9559771G>A	uc010cod.2	+	2	556	c.556G>A	c.(556-558)GCC>ACC	p.A186T	USP43_uc002gma.3_5'UTR|USP43_uc010vva.1_Missense_Mutation_p.A186T|USP43_uc010coe.2_Silent_p.T17T	NM_153210	NP_694942	Q70EL4	UBP43_HUMAN	ubiquitin specific protease 43	186					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						CCAGCACGACGCCCTGGAATT	0.517													7	16					0	0	0.003080	0	0	
DHRS7C	201140	broad.mit.edu	37	17	9674988	9674988	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:9674988G>A	uc010vvb.1	-	6	756	c.756C>T	c.(754-756)GGC>GGT	p.G252G	DHRS7C_uc010cof.2_Silent_p.G251G	NM_001105571	NP_001099041	A6NNS2	DRS7C_HUMAN	dehydrogenase/reductase (SDR family) member 7C	252						extracellular region	binding|oxidoreductase activity				0						CTGGGTGCACGCCGTAGGTCA	0.627													9	7					0	0	0.000978	0	0	
GLP2R	9340	broad.mit.edu	37	17	9739794	9739794	+	Splice_Site	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:9739794T>C	uc002gmd.1	+	3	382	c.382_splice	c.e3+2	p.E128_splice	GLP2R_uc010cog.1_Splice_Site	NM_004246	NP_004237	O95838	GLP2R_HUMAN	glucagon-like peptide 2 receptor precursor						G-protein signaling, coupled to cAMP nucleotide second messenger|positive regulation of cell proliferation	integral to membrane|plasma membrane				lung(2)|ovary(1)	3					Glucagon recombinant(DB00040)	GGAGTGAAGGTAATAAGTCTT	0.438													23	73					0	0	0.002299	0	0	
GAS7	8522	broad.mit.edu	37	17	9828828	9828828	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:9828828T>C	uc002gmg.1	-	11	1264	c.1103A>G	c.(1102-1104)GAC>GGC	p.D368G	GAS7_uc010vvc.1_Missense_Mutation_p.D182G|GAS7_uc002gmh.1_Missense_Mutation_p.D228G|GAS7_uc010vvd.1_Missense_Mutation_p.D320G|GAS7_uc002gmi.2_Missense_Mutation_p.D304G|GAS7_uc002gmj.1_Missense_Mutation_p.D308G|GAS7_uc010coh.1_Missense_Mutation_p.D308G	NM_201433	NP_958839	O60861	GAS7_HUMAN	growth arrest-specific 7 isoform c	368	Potential.				cell cycle arrest	cytoplasm	sequence-specific DNA binding transcription factor activity			lung(1)|pancreas(1)	2						CTTCTTGATGTCCTCCTCTGT	0.612			T	MLL	AML*						OREG0024170	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	90					0	0	0.009096	0	0	
MYH13	8735	broad.mit.edu	37	17	10231321	10231321	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:10231321C>A	uc002gmk.1	-	22	2643	c.2553G>T	c.(2551-2553)AAG>AAT	p.K851N		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	851	Potential.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						TGGCCATCTCCTTCTCGGCCT	0.537											OREG0024177	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	40					0.00116845	0.00121571	0.001168	1	0	
MYH4	4622	broad.mit.edu	37	17	10353795	10353795	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:10353795G>A	uc002gmn.2	-	30	4267	c.4156C>T	c.(4156-4158)CGC>TGC	p.R1386C	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	1386	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						TCCTCTGTGCGCTGGATGGCG	0.527													26	96					0	0	0.002836	0	0	
MYH4	4622	broad.mit.edu	37	17	10364241	10364241	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:10364241C>T	uc002gmn.2	-	12	1250	c.1139G>A	c.(1138-1140)GGC>GAC	p.G380D	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	380	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						ACCTTCCGTGCCATCTGGCTC	0.478													5	92					0	0	0.001168	0	0	
MYH2	4620	broad.mit.edu	37	17	10438444	10438444	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:10438444C>T	uc010coi.2	-	19	2254	c.2126G>A	c.(2125-2127)CGC>CAC	p.R709H	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.R709H|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	709	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle	p.R709C(1)		ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						CCTACAGATGCGGATGCCTTC	0.433													20	72					0	0	0.001882	0	0	
MYH2	4620	broad.mit.edu	37	17	10442798	10442798	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:10442798C>T	uc010coi.2	-	13	1357	c.1229G>A	c.(1228-1230)GGC>GAC	p.G410D	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.G410D|MYH2_uc010coj.2_Missense_Mutation_p.G410D	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	410	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						ATACTCATTGCCGACCTTGAC	0.453													31	139					0	0	0.002096	0	0	
MYH3	4621	broad.mit.edu	37	17	10532947	10532947	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:10532947G>T	uc002gmq.1	-	39	5840	c.5763C>A	c.(5761-5763)CTC>CTA	p.L1921L		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	1921	Potential.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						TCTTAGCGCGGAGCTTGTTGA	0.517													5	46					1.23904e-05	1.30714e-05	0.000602	1	0	
MYH3	4621	broad.mit.edu	37	17	10554850	10554850	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:10554850C>T	uc002gmq.1	-	4	561	c.484G>A	c.(484-486)GCC>ACC	p.A162T		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	162	Myosin head-like.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						AACTGATAGGCGTTGTCAGAG	0.597													16	161					0	0	0.010504	0	0	
MYOCD	93649	broad.mit.edu	37	17	12656117	12656117	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:12656117C>T	uc002gnn.2	+	10	1811	c.1512C>T	c.(1510-1512)GGC>GGT	p.G504G	MYOCD_uc002gno.2_Silent_p.G504G|MYOCD_uc002gnp.1_Silent_p.G408G|MYOCD_uc002gnq.2_Silent_p.G223G	NM_153604	NP_705832	Q8IZQ8	MYCD_HUMAN	myocardin isoform 2	504	Ser-rich.				cardiac muscle cell differentiation|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|positive regulation of smooth muscle cell differentiation|positive regulation of smooth muscle contraction|positive regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation|regulation of histone acetylation|smooth muscle cell differentiation	nucleus	nucleic acid binding|RNA polymerase II transcription factor binding transcription factor activity|transcription factor binding			central_nervous_system(2)|skin(2)|ovary(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.0969)		TGAATGGGGGCTCTGTTCCTT	0.577													4	23					0	0	0.009096	0	0	
MYOCD	93649	broad.mit.edu	37	17	12666430	12666430	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:12666430A>G	uc002gnn.2	+	13	2585	c.2286A>G	c.(2284-2286)CAA>CAG	p.Q762Q	MYOCD_uc002gno.2_Silent_p.Q810Q|MYOCD_uc002gnq.2_Silent_p.Q486Q	NM_153604	NP_705832	Q8IZQ8	MYCD_HUMAN	myocardin isoform 2	762					cardiac muscle cell differentiation|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|positive regulation of smooth muscle cell differentiation|positive regulation of smooth muscle contraction|positive regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation|regulation of histone acetylation|smooth muscle cell differentiation	nucleus	nucleic acid binding|RNA polymerase II transcription factor binding transcription factor activity|transcription factor binding			central_nervous_system(2)|skin(2)|ovary(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.0969)		CATGTCTTCAAAAAGTCCCAA	0.483													30	79					0	0	0.004289	0	0	
CDRT15P	94158	broad.mit.edu	37	17	13927944	13927944	+	RNA	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:13927944G>A	uc002god.1	+	1		c.130G>A				NR_003261				Homo sapiens CMT1A duplicated region transcript 15 pseudogene (CDRT15P), non-coding RNA.												0						GACGCCTGTCGCCCGTTGTAA	0.602													5	21					0	0	0.000602	0	0	
TRIM16	10626	broad.mit.edu	37	17	15532000	15532000	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:15532000C>T	uc002gox.2	-	9	2181	c.1624G>A	c.(1624-1626)GCC>ACC	p.A542T	TRIM16_uc002gor.1_Intron|TRIM16_uc002gow.2_Missense_Mutation_p.A326T|TRIM16_uc002goy.2_Missense_Mutation_p.A412T	NM_006470	NP_006461	O95361	TRI16_HUMAN	tripartite motif-containing 16	542	B30.2/SPRY.				histone H3 acetylation|histone H4 acetylation|positive regulation of interleukin-1 beta secretion|positive regulation of keratinocyte differentiation|positive regulation of retinoic acid receptor signaling pathway|positive regulation of transcription, DNA-dependent|response to growth hormone stimulus|response to organophosphorus|response to retinoic acid	cytoplasm|plasma membrane|PML body	DNA binding|interleukin-1 binding|NACHT domain binding|zinc ion binding			ovary(2)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (92;0.0839)|Epithelial(1;8.4e-29)|all cancers(1;3.06e-28)|Colorectal(1;1.57e-19)|OV - Ovarian serous cystadenocarcinoma(1;6.1e-17)|COAD - Colon adenocarcinoma(1;3.38e-12)|READ - Rectum adenocarcinoma(2;1.46e-05)|BRCA - Breast invasive adenocarcinoma(8;0.0559)		ATCCGGATGGCGTTTTCCTTC	0.517													5	31					0	0	0.001984	0	0	
NCOR1	9611	broad.mit.edu	37	17	15961846	15961846	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:15961846C>T	uc002gpo.2	-	38	6189	c.5949G>A	c.(5947-5949)GCG>GCA	p.A1983A	NCOR1_uc002gpn.2_Silent_p.A1880A|NCOR1_uc002gpl.2_5'Flank|NCOR1_uc002gpm.2_Silent_p.A503A|NCOR1_uc010vwb.1_Silent_p.A567A|NCOR1_uc010coy.2_Silent_p.A891A|NCOR1_uc010vwc.1_Silent_p.A793A	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	1983	Interaction with C1D (By similarity).				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		CCTGGGGTGGCGCAGGTGAGC	0.403													32	83					0	0	0.003271	0	0	
NCOR1	9611	broad.mit.edu	37	17	15968937	15968937	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:15968937C>T	uc002gpo.2	-	33	5053	c.4813G>A	c.(4813-4815)GCA>ACA	p.A1605T	NCOR1_uc002gpn.2_Missense_Mutation_p.A1621T|NCOR1_uc002gpm.2_Missense_Mutation_p.A125T|NCOR1_uc010vwb.1_Missense_Mutation_p.A189T|NCOR1_uc010coy.2_Missense_Mutation_p.A513T|NCOR1_uc010vwc.1_Missense_Mutation_p.A415T	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	1605	Interaction with ETO.|Interaction with C1D (By similarity).				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		TTCTCCATTGCGTAAAGCTGA	0.463													9	58					0	0	0.008291	0	0	
NCOR1	9611	broad.mit.edu	37	17	15974755	15974755	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:15974755T>C	uc002gpo.2	-	30	4360	c.4120A>G	c.(4120-4122)ACA>GCA	p.T1374A	NCOR1_uc002gpn.2_Missense_Mutation_p.T1390A|NCOR1_uc002gpp.1_Missense_Mutation_p.T1281A|NCOR1_uc010vwb.1_Intron|NCOR1_uc010coy.2_Missense_Mutation_p.T282A|NCOR1_uc010vwc.1_Missense_Mutation_p.T185A	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	1374	Interaction with ETO.				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		ATCGGCCGTGTGCTCTGGACC	0.403													30	118					0	0	0.003755	0	0	
ZNF624	57547	broad.mit.edu	37	17	16538059	16538059	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:16538059T>C	uc010cpi.1	-	4	248	c.165A>G	c.(163-165)ACA>ACG	p.T55T		NM_020787	NP_065838	Q9P2J8	ZN624_HUMAN	zinc finger protein 624	55	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)		CATCCTTAAATGTCACCGATT	0.408													4	63					0	0	0.001168	0	0	
MPRIP	23164	broad.mit.edu	37	17	17062260	17062260	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:17062260G>A	uc002gqu.1	+	14	2046	c.1990G>A	c.(1990-1992)GAA>AAA	p.E664K	MPRIP_uc002gqv.1_Missense_Mutation_p.E664K|MPRIP_uc002gqw.1_Missense_Mutation_p.E419K	NM_201274	NP_958431	Q6WCQ1	MPRIP_HUMAN	myosin phosphatase-Rho interacting protein	664	Interaction with RHOA.					cytoplasm|cytoskeleton	actin binding				0						CCTGTCTTCTGAAGATGGGGG	0.612													5	18					0	0	0.000602	0	0	
TOM1L2	146691	broad.mit.edu	37	17	17766053	17766053	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:17766053C>T	uc002grz.3	-	11	1351	c.1194G>A	c.(1192-1194)CAG>CAA	p.Q398Q	TOM1L2_uc002gry.3_Silent_p.Q348Q|TOM1L2_uc010vwy.1_Silent_p.Q345Q|TOM1L2_uc010cpr.2_Silent_p.Q353Q|TOM1L2_uc010vwz.1_Silent_p.Q250Q|TOM1L2_uc010vxa.1_Silent_p.Q300Q|TOM1L2_uc002grv.3_Silent_p.Q131Q	NM_001082968	NP_001076437	Q6ZVM7	TM1L2_HUMAN	target of myb1-like 2 isoform 3	398					intracellular protein transport	intracellular					0	all_neural(463;0.228)					ACGTCTTGCGCTGCTCAGCCA	0.527													57	156					0	0	0.003610	0	0	
MYO15A	51168	broad.mit.edu	37	17	18023355	18023355	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:18023355T>C	uc010vxh.1	+	2	1579	c.1241T>C	c.(1240-1242)GTA>GCA	p.V414A		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	414	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					TACCCCTGGGTACCACCGCCC	0.662													5	19					0	0	0.000602	0	0	
MYO15A	51168	broad.mit.edu	37	17	18039937	18039937	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:18039937C>T	uc010vxh.1	+	14	5054	c.4716C>T	c.(4714-4716)AAC>AAT	p.N1572N		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	1572	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					CCAGGGTCAACGCGCTGGTGT	0.617													5	23					0	0	0.003080	0	0	
MYO15A	51168	broad.mit.edu	37	17	18054496	18054496	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:18054496G>T	uc010vxh.1	+	38	7884	c.7546G>T	c.(7546-7548)GCC>TCC	p.A2516S	MYO15A_uc010vxi.1_5'Flank|MYO15A_uc010vxj.1_5'Flank|MYO15A_uc010vxk.1_5'Flank	NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	2516	Tail.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					GCTCCTGCGTGCCACTCCAAA	0.652													5	38					0.000602214	0.000627828	0.000602	1	0	
TOP3A	7156	broad.mit.edu	37	17	18205934	18205934	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:18205934G>A	uc002gsx.1	-	6	832	c.603C>T	c.(601-603)AGC>AGT	p.S201S	TOP3A_uc010vxr.1_5'Flank|TOP3A_uc002gsw.1_5'UTR|TOP3A_uc010vxs.1_Silent_p.S99S|TOP3A_uc010cqa.1_RNA	NM_004618	NP_004609	Q13472	TOP3A_HUMAN	topoisomerase (DNA) III alpha	201					DNA topological change|meiosis	chromosome|PML body	ATP binding|DNA topoisomerase type I activity|protein binding|zinc ion binding			skin(3)	3						CCACAGCATCGCTCACCCTCT	0.547													12	36					0	0	0.002450	0	0	
FBXW10	10517	broad.mit.edu	37	17	18668087	18668087	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:18668087G>A	uc002guk.2	+	8	1698	c.1466G>A	c.(1465-1467)CGA>CAA	p.R489Q	FBXW10_uc002guj.2_Missense_Mutation_p.R489Q|FBXW10_uc002gul.2_Missense_Mutation_p.R518Q|FBXW10_uc010cqh.1_Missense_Mutation_p.R489Q	NM_031456	NP_113644	Q5XX13	FBW10_HUMAN	F-box and WD-40 domain protein 10	489	WD 3.									ovary(1)	1						GTTTGCACACGAATCTTCGGT	0.493													22	65					0	0	0.003954	0	0	
PRPSAP2	5636	broad.mit.edu	37	17	18770597	18770597	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:18770597G>A	uc002gup.1	+	4	333	c.122G>A	c.(121-123)CGG>CAG	p.R41Q	PRPSAP2_uc002guo.1_Intron|PRPSAP2_uc010vyi.1_Intron|PRPSAP2_uc010vyj.1_Intron|PRPSAP2_uc010vyk.1_Missense_Mutation_p.R29Q	NM_002767	NP_002758	O60256	KPRB_HUMAN	phosphoribosyl pyrophosphate	41					nucleotide biosynthetic process		enzyme inhibitor activity|magnesium ion binding|ribose phosphate diphosphokinase activity			skin(1)	1						TTCTCTAGGCGGCTAGGGGTG	0.418													4	25					0	0	0.000602	0	0	
PRPSAP2	5636	broad.mit.edu	37	17	18781095	18781095	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:18781095A>G	uc002gup.1	+	6	535	c.324A>G	c.(322-324)ATA>ATG	p.I108M	PRPSAP2_uc002guo.1_Missense_Mutation_p.I22M|PRPSAP2_uc010vyi.1_Missense_Mutation_p.I56M|PRPSAP2_uc010vyj.1_Missense_Mutation_p.I22M|PRPSAP2_uc010vyk.1_Missense_Mutation_p.I96M	NM_002767	NP_002758	O60256	KPRB_HUMAN	phosphoribosyl pyrophosphate	108					nucleotide biosynthetic process		enzyme inhibitor activity|magnesium ion binding|ribose phosphate diphosphokinase activity			skin(1)	1						TTGGCGTGATACCCTACTTTC	0.463													26	87					0	0	0.007291	0	0	
MAPK7	5598	broad.mit.edu	37	17	19283208	19283208	+	Missense_Mutation	SNP	G	A	A	rs147142467	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:19283208G>A	uc002gvn.2	+	3	732	c.346G>A	c.(346-348)GCC>ACC	p.A116T	B9D1_uc010cqm.1_5'Flank|B9D1_uc002gvl.3_5'Flank|MAPK7_uc002gvo.2_Intron|MAPK7_uc002gvq.2_Missense_Mutation_p.A116T|MAPK7_uc002gvp.2_Missense_Mutation_p.A116T	NM_139033	NP_620602	Q13164	MK07_HUMAN	mitogen-activated protein kinase 7 isoform 1	116	Required for binding to MAP2K5 (By similarity).|Protein kinase.				cell cycle|cell differentiation|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase activity|protein binding			central_nervous_system(4)|lung(3)|stomach(1)|skin(1)	9	all_cancers(12;2.87e-05)|all_epithelial(12;0.00114)|Hepatocellular(7;0.00345)|Breast(13;0.206)					CAACATCATCGCCATCAAGGA	0.512													10	86					0	0	0.006214	0	0	
MAPK7	5598	broad.mit.edu	37	17	19284190	19284190	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:19284190C>T	uc002gvn.2	+	4	1054	c.668C>T	c.(667-669)GCC>GTC	p.A223V	B9D1_uc010cqm.1_5'Flank|B9D1_uc002gvl.3_5'Flank|MAPK7_uc002gvo.2_Missense_Mutation_p.A84V|MAPK7_uc002gvq.2_Missense_Mutation_p.A223V|MAPK7_uc002gvp.2_Missense_Mutation_p.A223V	NM_139033	NP_620602	Q13164	MK07_HUMAN	mitogen-activated protein kinase 7 isoform 1	223	Necessary for oligomerization (By similarity).|Protein kinase.				cell cycle|cell differentiation|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase activity|protein binding			central_nervous_system(4)|lung(3)|stomach(1)|skin(1)	9	all_cancers(12;2.87e-05)|all_epithelial(12;0.00114)|Hepatocellular(7;0.00345)|Breast(13;0.206)					GAGTATGTGGCCACGCGCTGG	0.537													10	12					0	0	0.006214	0	0	
MAPK7	5598	broad.mit.edu	37	17	19286236	19286236	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:19286236C>T	uc002gvn.2	+	6	2660	c.2274C>T	c.(2272-2274)GGC>GGT	p.G758G	MAPK7_uc002gvo.2_Silent_p.G619G|MAPK7_uc002gvq.2_Silent_p.G758G|MAPK7_uc002gvp.2_Silent_p.G758G|uc010vyt.1_5'Flank	NM_139033	NP_620602	Q13164	MK07_HUMAN	mitogen-activated protein kinase 7 isoform 1	758	May not be required for kinase activity; required to stimulate MEF2C activity (By similarity).				cell cycle|cell differentiation|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase activity|protein binding			central_nervous_system(4)|lung(3)|stomach(1)|skin(1)	9	all_cancers(12;2.87e-05)|all_epithelial(12;0.00114)|Hepatocellular(7;0.00345)|Breast(13;0.206)					TCGACATGGGCGTGGCTGATG	0.592													12	45					0	0	0.003163	0	0	
SLC47A2	146802	broad.mit.edu	37	17	19584902	19584902	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:19584902C>T	uc002gwe.3	-	14	1529	c.1354G>A	c.(1354-1356)GGC>AGC	p.G452S	SLC47A2_uc002gwg.3_Missense_Mutation_p.G416S|SLC47A2_uc002gwf.3_Missense_Mutation_p.G430S|SLC47A2_uc002gwh.3_RNA|SLC47A2_uc002gwi.2_RNA|SLC47A2_uc010cqs.1_RNA	NM_152908	NP_690872	Q86VL8	S47A2_HUMAN	solute carrier family 47, member 2 isoform 1	452	Helical; (Potential).					integral to membrane|plasma membrane	drug:hydrogen antiporter activity				0	all_cancers(12;2.3e-05)|all_epithelial(12;0.0024)|Breast(13;0.245)					AGTGGTAGGCCGATGATGTAA	0.532													21	35					0	0	0.002299	0	0	
CCDC144C	348254	broad.mit.edu	37	17	20224852	20224852	+	RNA	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:20224852G>A	uc010cqy.1	+	1		c.366G>A				NR_023380				Homo sapiens cDNA FLJ59693 complete cds, moderately similar to Ankyrin repeat domain-containing protein 26.												0						GCCCCAGCACGATGTCCGCCT	0.652													20	91					0	0	0.001882	0	0	
Unknown	0	broad.mit.edu	37	17	20884809	20884809	+	RNA	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:20884809G>A	uc002gyk.1	+	6		c.809G>A								Homo sapiens hypothetical protein LOC339260, mRNA (cDNA clone IMAGE:5168338), partial cds.																		GCTCCACAGGGCCTGTGAGCA	0.587													3	7					0	0	0.004672	0	0	
USP22	23326	broad.mit.edu	37	17	20922459	20922459	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:20922459C>T	uc002gym.3	-	4	662	c.458G>A	c.(457-459)CGG>CAG	p.R153Q	USP22_uc002gyn.3_Missense_Mutation_p.R141Q|USP22_uc002gyl.3_Missense_Mutation_p.R48Q	NM_015276	NP_056091	Q9UPT9	UBP22_HUMAN	ubiquitin thiolesterase 22	153					cell cycle|embryo development|histone deubiquitination|histone H4 acetylation|histone ubiquitination|positive regulation of mitotic cell cycle|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	SAGA complex	ligand-dependent nuclear receptor transcription coactivator activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(1)	1						TTCAAGCTCCCGTTTGGTTGG	0.478													6	121					0	0	0.003080	0	0	
TMEM11	8834	broad.mit.edu	37	17	21101798	21101798	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:21101798C>T	uc002gyp.2	-	2	861	c.418G>A	c.(418-420)GCC>ACC	p.A140T	TMEM11_uc002gyq.2_3'UTR	NM_003876	NP_003867	P17152	TMM11_HUMAN	transmembrane protein 11	140					mitochondrion organization	integral to mitochondrial inner membrane|integral to plasma membrane	protein binding				0						AGTTTATAGGCGTCGTACTCC	0.597													4	52					0	0	0.000602	0	0	
KCNJ12	3768	broad.mit.edu	37	17	21319358	21319358	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:21319358C>T	uc002gyv.1	+	3	1409	c.704C>T	c.(703-705)CCG>CTG	p.P235L		NM_021012	NP_066292	Q14500	IRK12_HUMAN	potassium inwardly-rectifying channel, subfamily	235	Cytoplasmic (By similarity).				blood circulation|muscle contraction|regulation of heart contraction|synaptic transmission	integral to membrane	inward rectifier potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(3)|skin(1)	4				Colorectal(15;0.0183)|COAD - Colon adenocarcinoma(3;0.0732)	Dofetilide(DB00204)	CTCATCAAGCCGCGGGTCACC	0.637										Prostate(3;0.18)			4	33					0	0	0.003080	0	0	
KSR1	8844	broad.mit.edu	37	17	25910117	25910117	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:25910117C>T	uc010crg.2	+	5	1000	c.555C>T	c.(553-555)GAC>GAT	p.D185D	KSR1_uc002gzj.1_RNA	NM_014238	NP_055053	Q8IVT5	KSR1_HUMAN	kinase suppressor of ras	320					Ras protein signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|central_nervous_system(1)	4	Lung NSC(42;0.00836)		BRCA - Breast invasive adenocarcinoma(3;0.00122)	UCEC - Uterine corpus endometrioid carcinoma (53;0.168)		GCATTGATGACGTCTCCTCGA	0.542													4	7					0	0	0.001168	0	0	
KSR1	8844	broad.mit.edu	37	17	25934953	25934953	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:25934953C>T	uc010crg.2	+	16	2108	c.1663C>T	c.(1663-1665)CGG>TGG	p.R555W	KSR1_uc002gzm.2_Missense_Mutation_p.R334W|KSR1_uc002gzn.2_5'Flank	NM_014238	NP_055053	Q8IVT5	KSR1_HUMAN	kinase suppressor of ras	690	Protein kinase.				Ras protein signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|central_nervous_system(1)	4	Lung NSC(42;0.00836)		BRCA - Breast invasive adenocarcinoma(3;0.00122)	UCEC - Uterine corpus endometrioid carcinoma (53;0.168)		CTGCAAGGGGCGGACGTTGCA	0.617													4	9					0	0	0.001168	0	0	
ERAL1	26284	broad.mit.edu	37	17	27187476	27187476	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:27187476G>A	uc002hcy.1	+	10	1229	c.1219G>A	c.(1219-1221)GTG>ATG	p.V407M	ERAL1_uc002hcz.1_RNA|ERAL1_uc002hda.1_Missense_Mutation_p.V214M|ERAL1_uc002hdb.1_Missense_Mutation_p.V290M	NM_005702	NP_005693	O75616	ERAL1_HUMAN	Era-like 1	407	KH type-2.				ribosomal small subunit assembly	mitochondrial inner membrane|mitochondrial matrix	GTP binding|ribosomal small subunit binding|rRNA binding			skin(1)	1	all_cancers(5;2.12e-15)|all_epithelial(6;3.44e-19)|Lung NSC(42;0.01)		Epithelial(11;1.12e-05)|all cancers(11;5.32e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000272)|OV - Ovarian serous cystadenocarcinoma(11;0.105)			GAAGGGCCACGTGATCTCCCA	0.408													27	51					0	0	0.009535	0	0	
CPD	1362	broad.mit.edu	37	17	28754503	28754503	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:28754503G>A	uc002hfb.1	+	7	1959	c.1944G>A	c.(1942-1944)ACG>ACA	p.T648T	CPD_uc010wbo.1_Silent_p.T401T|CPD_uc010wbp.1_RNA	NM_001304	NP_001295	O75976	CBPD_HUMAN	carboxypeptidase D precursor	648	Extracellular (Potential).|Carboxypeptidase-like 2.				proteolysis	integral to membrane	metallocarboxypeptidase activity|serine-type carboxypeptidase activity|zinc ion binding			liver(1)|skin(1)	2						CAGATCCTACGCAACCAGAAA	0.398													34	96					0	0	0.002836	0	0	
LRRC37B	114659	broad.mit.edu	37	17	30362634	30362634	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:30362634C>T	uc002hgu.2	+	7	2110	c.2099C>T	c.(2098-2100)ACG>ATG	p.T700M	LRRC37B_uc010wbx.1_Missense_Mutation_p.T618M|LRRC37B_uc010csu.2_Missense_Mutation_p.T649M	NM_052888	NP_443120	Q96QE4	LR37B_HUMAN	leucine rich repeat containing 37B precursor	700	Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2		Myeloproliferative disorder(56;0.0255)|all_hematologic(16;0.111)|Ovarian(249;0.182)|Breast(31;0.244)				AACATTCTCACGATGACTGTT	0.284													7	158					0	0	0.006214	0	0	
MYO1D	4642	broad.mit.edu	37	17	31087608	31087608	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:31087608C>T	uc002hho.1	-	9	1085	c.1073G>A	c.(1072-1074)CGC>CAC	p.R358H	MYO1D_uc002hhp.1_Missense_Mutation_p.R358H|MYO1D_uc010wcb.1_Missense_Mutation_p.R358H	NM_015194	NP_056009	O94832	MYO1D_HUMAN	myosin ID	358	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3			BRCA - Breast invasive adenocarcinoma(9;0.0362)			ATCATTGATGCGAGTAACGAT	0.383													5	84					0	0	0.001984	0	0	
MYO1D	4642	broad.mit.edu	37	17	31087632	31087632	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:31087632C>T	uc002hho.1	-	9	1061	c.1049G>A	c.(1048-1050)CGC>CAC	p.R350H	MYO1D_uc002hhp.1_Missense_Mutation_p.R350H|MYO1D_uc010wcb.1_Missense_Mutation_p.R350H	NM_015194	NP_056009	O94832	MYO1D_HUMAN	myosin ID	350	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3			BRCA - Breast invasive adenocarcinoma(9;0.0362)			ACAAAAAAGGCGCTCATATAT	0.383													22	73					0	0	0.002780	0	0	
CCT6B	10693	broad.mit.edu	37	17	33259515	33259515	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:33259515A>G	uc002hig.2	-	11	1312	c.1218T>C	c.(1216-1218)TGT>TGC	p.C406C	CCT6B_uc010ctg.2_Silent_p.C369C|CCT6B_uc010wcc.1_Silent_p.C361C	NM_006584	NP_006575	Q92526	TCPW_HUMAN	chaperonin containing TCP1, subunit 6B	406					chaperone-mediated protein complex assembly|protein folding|spermatogenesis	cytoplasm	ATP binding|protein transporter activity|unfolded protein binding			pancreas(1)	1		Ovarian(249;0.17)				CAGGAACCATACAACCTATTG	0.388													4	227					0	0	0.000602	0	0	
CCT6B	10693	broad.mit.edu	37	17	33266272	33266272	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:33266272C>A	uc002hig.2	-	10	1237	c.1143G>T	c.(1141-1143)AAG>AAT	p.K381N	CCT6B_uc010ctg.2_Missense_Mutation_p.K344N|CCT6B_uc010wcc.1_Missense_Mutation_p.K336N	NM_006584	NP_006575	Q92526	TCPW_HUMAN	chaperonin containing TCP1, subunit 6B	381					chaperone-mediated protein complex assembly|protein folding|spermatogenesis	cytoplasm	ATP binding|protein transporter activity|unfolded protein binding			pancreas(1)	1		Ovarian(249;0.17)				TGAGAGTATGCTTATTTGGTC	0.388													24	117					7.92952e-12	8.56966e-12	0.003954	1	0	
LIG3	3980	broad.mit.edu	37	17	33326437	33326437	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:33326437A>G	uc002hik.1	+	15	2333	c.2225A>G	c.(2224-2226)CAG>CGG	p.Q742R	LIG3_uc002hij.2_Missense_Mutation_p.Q742R	NM_013975	NP_039269	P49916	DNLI3_HUMAN	ligase III, DNA, ATP-dependent isoform alpha	742					base-excision repair|cell division|DNA ligation involved in DNA repair|DNA replication|reciprocal meiotic recombination|spermatogenesis	nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|protein binding|zinc ion binding			skin(3)|lung(2)|ovary(2)|large_intestine(1)|pancreas(1)	9		Ovarian(249;0.17)			Bleomycin(DB00290)	GCCCGCCTGCAGAATGAACTA	0.572								Other_BER_factors					4	27					0	0	0.001984	0	0	
SLFN5	162394	broad.mit.edu	37	17	33586592	33586592	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:33586592G>A	uc002hjf.3	+	2	1000	c.883G>A	c.(883-885)GCA>ACA	p.A295T	SLFN5_uc002hje.2_Missense_Mutation_p.A295T|SLFN5_uc010wcg.1_Missense_Mutation_p.A295T	NM_144975	NP_659412	Q08AF3	SLFN5_HUMAN	schlafen family member 5	295					cell differentiation		ATP binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0191)		ATATGTCTGTGCAATCAAGGT	0.488													15	123					0	0	0.006122	0	0	
SLFN5	162394	broad.mit.edu	37	17	33591298	33591298	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:33591298G>A	uc002hjf.3	+	4	1352	c.1235G>A	c.(1234-1236)CGC>CAC	p.R412H	SLFN5_uc010wcg.1_Intron	NM_144975	NP_659412	Q08AF3	SLFN5_HUMAN	schlafen family member 5	412					cell differentiation		ATP binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0191)		ACAGAAATGCGCCCTTTCTCT	0.403													21	82					0	0	0.010504	0	0	
RASL10B	91608	broad.mit.edu	37	17	34068171	34068171	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:34068171C>T	uc002hju.2	+	4	825	c.459C>T	c.(457-459)TGC>TGT	p.C153C		NM_033315	NP_201572	Q96S79	RSLAB_HUMAN	RAS-like, family 10, member B precursor	153	Small GTPase-like.				small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity			lung(2)|breast(2)	4				UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		CCTGGAAGTGCGGCTACGTGG	0.632													10	18					0	0	0.002450	0	0	
MMP28	79148	broad.mit.edu	37	17	34097268	34097268	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:34097268C>T	uc002hjy.1	-	7	927	c.668G>A	c.(667-669)CGC>CAC	p.R223H	MMP28_uc002hjw.1_RNA|MMP28_uc002hjz.1_RNA	NM_024302	NP_077278	Q9H239	MMP28_HUMAN	matrix metalloproteinase 28 isoform 1	223					proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		CAGGGACCAGCGCTCATCTTG	0.746													3	5					0	0	0.004672	0	0	
MMP28	79148	broad.mit.edu	37	17	34106032	34106032	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:34106032C>T	uc002hjy.1	-	3	498	c.239G>A	c.(238-240)CGC>CAC	p.R80H	MMP28_uc002hjw.1_RNA|MMP28_uc002hjz.1_RNA|MMP28_uc002hka.2_Missense_Mutation_p.R80H	NM_024302	NP_077278	Q9H239	MMP28_HUMAN	matrix metalloproteinase 28 isoform 1	80					proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		CAGGGTGGCGCGGTCCAACAC	0.607													13	26					0	0	0.001368	0	0	
TBC1D3B	414059	broad.mit.edu	37	17	34499219	34499219	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:34499219T>C	uc002hky.2	-	7	642	c.492A>G	c.(490-492)GGA>GGG	p.G164G	uc002hla.1_5'Flank|uc002hlc.2_5'Flank	NM_001001417	NP_001001417	Q8IZP1	TBC3A_HUMAN	TBC1 domain family, member 3B	164	Rab-GAP TBC.					intracellular	Rab GTPase activator activity				0		Breast(25;0.102)|Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		CTTACTTGGTTCCGTATCGAT	0.577													8	303					0	0	0.000978	0	0	
ACACA	31	broad.mit.edu	37	17	35603887	35603887	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:35603887C>T	uc002hnm.2	-	19	2395	c.2204G>A	c.(2203-2205)CGC>CAC	p.R735H	ACACA_uc002hnk.2_Missense_Mutation_p.R657H|ACACA_uc002hnl.2_Missense_Mutation_p.R677H|ACACA_uc002hnn.2_Missense_Mutation_p.R735H|ACACA_uc002hno.2_Missense_Mutation_p.R772H|ACACA_uc010cuz.2_Missense_Mutation_p.R735H	NM_198836	NP_942133	Q13085	ACACA_HUMAN	acetyl-Coenzyme A carboxylase alpha isoform 2	735					acetyl-CoA metabolic process|energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|triglyceride biosynthetic process	cytosol	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			large_intestine(1)|ovary(1)	2		Breast(25;0.00157)|Ovarian(249;0.15)			Biotin(DB00121)	AATTGTGATGCGATATCTAGG	0.408													10	101					0	0	0.008291	0	0	
HNF1B	6928	broad.mit.edu	37	17	36099531	36099531	+	Silent	SNP	C	T	T	rs147218489		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:36099531C>T	uc002hok.3	-	2	665	c.444G>A	c.(442-444)TCG>TCA	p.S148S	HNF1B_uc010wdi.1_Silent_p.S148S	NM_000458	NP_000449	P35680	HNF1B_HUMAN	hepatocyte nuclear factor 1-beta isoform 1	148			S -> W (in RCAD).|S -> L (in RCAD).		endocrine pancreas development|genitalia development|kidney development|positive regulation of transcription initiation from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|pronephric nephron tubule development|regulation of pronephros size	nucleus	DNA binding|protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)	3		Breast(25;0.00765)|Ovarian(249;0.15)	STAD - Stomach adenocarcinoma(1;0.0142)			GGGAGAGGTGCGACTGGTTCA	0.567									Hereditary_Prostate_Cancer				5	47					0	0	0.000602	0	0	
MED1	5469	broad.mit.edu	37	17	37565282	37565282	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:37565282A>G	uc002hrv.3	-	17	3404	c.3192T>C	c.(3190-3192)ACT>ACC	p.T1064T	MED1_uc010wee.1_Silent_p.T892T|MED1_uc002hru.2_Intron	NM_004774	NP_004765	Q15648	MED1_HUMAN	mediator complex subunit 1	1064	Interaction with ESR1.				androgen biosynthetic process|androgen receptor signaling pathway|cellular lipid metabolic process|fat cell differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription initiation from RNA polymerase II promoter	mediator complex	DNA binding|estrogen receptor binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|peroxisome proliferator activated receptor binding|receptor activity|retinoic acid receptor binding|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			lung(2)|ovary(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	8		Ovarian(249;1.78e-06)|Lung SC(565;0.0262)	Lung(15;0.0178)|LUAD - Lung adenocarcinoma(14;0.146)	UCEC - Uterine corpus endometrioid carcinoma (308;6.64e-05)|BRCA - Breast invasive adenocarcinoma(366;0.00136)|READ - Rectum adenocarcinoma(1115;0.0649)		GAATCTGAATAGTGATTTTGG	0.522										HNSCC(31;0.082)			6	109					0	0	0.004482	0	0	
CDK12	51755	broad.mit.edu	37	17	37682159	37682159	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:37682159C>T	uc010cvv.2	+	13	3936	c.3350C>T	c.(3349-3351)GCA>GTA	p.A1117V	CDK12_uc010wef.1_Missense_Mutation_p.A1116V|CDK12_uc002hrw.3_Missense_Mutation_p.A1117V	NM_016507	NP_057591	Q9NYV4	CDK12_HUMAN	Cdc2-related kinase, arginine/serine-rich	1117					mRNA processing|phosphorylation of RNA polymerase II C-terminal domain|protein autophosphorylation|regulation of MAP kinase activity|RNA splicing	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck|nucleolus	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			ovary(10)|lung(4)|breast(2)|skin(2)|large_intestine(1)	19						AGTGAATTGGCAGTGTTATTA	0.498										TCGA Ovarian(9;0.13)			15	44					0	0	0.004990	0	0	
IKZF3	22806	broad.mit.edu	37	17	37948990	37948990	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:37948990G>A	uc002hsu.2	-	4	422	c.360C>T	c.(358-360)TGC>TGT	p.C120C	IKZF3_uc002htd.2_Silent_p.C86C|IKZF3_uc010cwd.2_Intron|IKZF3_uc002hsv.2_Silent_p.C86C|IKZF3_uc010cwe.2_Silent_p.C120C|IKZF3_uc010cwf.2_Intron|IKZF3_uc010cwg.2_Intron|IKZF3_uc002hsw.2_Silent_p.C120C|IKZF3_uc002hsx.2_Silent_p.C120C|IKZF3_uc002hsy.2_Silent_p.C120C|IKZF3_uc002hsz.2_Silent_p.C120C|IKZF3_uc002hta.2_Silent_p.C120C|IKZF3_uc002htb.2_RNA|IKZF3_uc010cwh.2_Intron|IKZF3_uc002htc.2_5'UTR	NM_012481	NP_036613	Q9UKT9	IKZF3_HUMAN	aiolos isoform 1	120	C2H2-type 1.				B cell activation|mesoderm development|regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(2)|kidney(2)|skin(2)	6	Breast(7;4.5e-103)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			CACACACATCGCAGTTCATCT	0.378													29	84					0	0	0.002445	0	0	
ZPBP2	124626	broad.mit.edu	37	17	38024850	38024850	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:38024850G>A	uc002hte.2	+	2	254	c.101G>A	c.(100-102)GGC>GAC	p.G34D	ZPBP2_uc002htf.2_Intron	NM_199321	NP_955353	Q6X784	ZPBP2_HUMAN	zona pellucida binding protein 2 isoform 2	34					binding of sperm to zona pellucida	extracellular region				ovary(1)	1	Colorectal(19;0.000442)		Lung(15;0.00849)|LUSC - Lung squamous cell carcinoma(15;0.171)			TTCATTTATGGCAAGACAGGA	0.517													5	101					0	0	0.000602	0	0	
CASC3	22794	broad.mit.edu	37	17	38319959	38319959	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:38319959C>A	uc010cwt.1	+	7	1306	c.1011C>A	c.(1009-1011)GGC>GGA	p.G337G	CASC3_uc010cws.1_Silent_p.G337G|CASC3_uc002hue.2_Silent_p.G337G	NM_007359	NP_031385	O15234	CASC3_HUMAN	metastatic lymph node 51	337					mRNA processing|mRNA transport|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translation|response to stress|RNA splicing	exon-exon junction complex|nuclear speck|perinuclear region of cytoplasm	identical protein binding|RNA binding|ubiquitin protein ligase binding			ovary(1)	1						AGCATGGTGGCCGGTCTGGTG	0.562													6	137					8.12818e-05	8.5301e-05	0.001984	1	0	
CDC6	990	broad.mit.edu	37	17	38450699	38450699	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:38450699T>C	uc002huj.1	+	7	1237	c.1027T>C	c.(1027-1029)TTC>CTC	p.F343L		NM_001254	NP_001245	Q99741	CDC6_HUMAN	cell division cycle 6 protein	343					cell division|DNA replication|DNA replication checkpoint|M/G1 transition of mitotic cell cycle|mitosis|negative regulation of cell proliferation|negative regulation of DNA replication|positive regulation of cell cycle cytokinesis|positive regulation of chromosome segregation|regulation of cyclin-dependent protein kinase activity|regulation of mitotic anaphase|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|traversing start control point of mitotic cell cycle	cytosol|nucleoplasm|spindle midzone|spindle pole	ATP binding|kinase binding|nucleoside-triphosphatase activity			ovary(2)|breast(1)	3						GCTGTTGAACTTCCCACCTTA	0.403													8	69					0	0	0.004482	0	0	
TOP2A	7153	broad.mit.edu	37	17	38557134	38557134	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:38557134G>A	uc002huq.2	-	21	2758	c.2632C>T	c.(2632-2634)CGT>TGT	p.R878C		NM_001067	NP_001058	P11388	TOP2A_HUMAN	DNA topoisomerase II, alpha isozyme	878					apoptotic chromosome condensation|DNA ligation|DNA repair|DNA topological change|DNA-dependent DNA replication|mitotic cell cycle G2/M transition decatenation checkpoint|mitotic recombination|phosphatidylinositol-mediated signaling|positive regulation of apoptosis|positive regulation of retroviral genome replication|resolution of meiotic recombination intermediates|sister chromatid segregation	cytoplasm|DNA topoisomerase complex (ATP-hydrolyzing)|nucleolus|nucleoplasm|synaptonemal complex	ATP binding|chromatin binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA-dependent ATPase activity|drug binding|histone deacetylase binding|protein C-terminus binding|protein heterodimerization activity|protein homodimerization activity|protein kinase C binding|sequence-specific DNA binding transcription factor activity|ubiquitin binding			ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7		Breast(137;0.00328)	STAD - Stomach adenocarcinoma(5;0.00183)		Amsacrine(DB00276)|Ciprofloxacin(DB00537)|Dexrazoxane(DB00380)|Doxorubicin(DB00997)|Enoxacin(DB00467)|Epirubicin(DB00445)|Etoposide(DB00773)|Fleroxacin(DB04576)|Gatifloxacin(DB01044)|Idarubicin(DB01177)|Levofloxacin(DB01137)|Lomefloxacin(DB00978)|Lucanthone(DB04967)|Mitoxantrone(DB01204)|Moxifloxacin(DB00218)|Norfloxacin(DB01059)|Ofloxacin(DB01165)|Pefloxacin(DB00487)|Podofilox(DB01179)|Sparfloxacin(DB01208)|Teniposide(DB00444)|Trovafloxacin(DB00685)|Valrubicin(DB00385)	TCCATCAAACGCCTGATGTTA	0.408													65	194					0	0	0.003610	0	0	
KRT222	125113	broad.mit.edu	37	17	38818220	38818220	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:38818220G>A	uc002hvc.2	-	2	238	c.173C>T	c.(172-174)GCC>GTC	p.A58V	KRT222_uc010wfk.1_RNA|KRT222_uc002hvb.2_Missense_Mutation_p.A18V|KRT222_uc010cxc.2_Missense_Mutation_p.A18V	NM_152349	NP_689562	Q8N1A0	KT222_HUMAN	truncated type I keratin KA21	58	Potential.					intermediate filament	structural molecule activity			central_nervous_system(1)|skin(1)	2						CTGGCGTCGGGCCTCCTTGAG	0.473													11	148					0	0	0.001368	0	0	
KRT27	342574	broad.mit.edu	37	17	38936056	38936056	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:38936056C>A	uc002hvg.2	-	4	783	c.742G>T	c.(742-744)GCC>TCC	p.A248S		NM_181537	NP_853515	Q7Z3Y8	K1C27_HUMAN	keratin 27	248	Rod.|Linker 12.					cytoplasm|intermediate filament	structural molecule activity				0		Breast(137;0.000812)				ACCCCGGGGGCCGCGTTCATC	0.527													14	37					2.48551e-13	2.69788e-13	0.004990	1	0	
KRT39	390792	broad.mit.edu	37	17	39114941	39114941	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:39114941G>A	uc002hvo.1	-	7	1424	c.1388C>T	c.(1387-1389)ACC>ATC	p.T463I	KRT39_uc010wfm.1_Missense_Mutation_p.T196I	NM_213656	NP_998821	Q6A163	K1C39_HUMAN	type I hair keratin KA35	463	Tail.					intermediate filament	structural molecule activity				0		Breast(137;0.00043)|Ovarian(249;0.15)				CTTGGTGATGGTGCAAATTTT	0.517													4	83					0	0	0.009096	0	0	
KRTAP1-3	81850	broad.mit.edu	37	17	39191019	39191019	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:39191019T>C	uc002hvv.2	-	1	89	c.55A>G	c.(55-57)ACA>GCA	p.T19A		NM_030966	NP_112228	Q8IUG1	KRA13_HUMAN	keratin associated protein 1-3	19						extracellular region|keratin filament	structural constituent of epidermis				0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000371)			GAGCCGCATGTCCCACTGGTG	0.582													3	12					0	0	0.000602	0	0	
KRTAP4-8	728224	broad.mit.edu	37	17	39254126	39254126	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:39254126C>T	uc010wfo.1	-	1	250	c.211G>A	c.(211-213)GTG>ATG	p.V71M		NM_031960	NP_114166	Q9BYQ9	KRA48_HUMAN	keratin associated protein 4.8	71	25 X 5 AA repeats of C-C-[IKRQVHEC]- [SPRT]-[STCVQPR].|10.					keratin filament					0						CAGCTGGACACACAGCAGCTG	0.547													5	20					0	0	0.000602	0	0	
KRTAP4-8	728224	broad.mit.edu	37	17	39254140	39254140	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:39254140C>T	uc010wfo.1	-	1	236	c.197G>A	c.(196-198)CGC>CAC	p.R66H		NM_031960	NP_114166	Q9BYQ9	KRA48_HUMAN	keratin associated protein 4.8	66	25 X 5 AA repeats of C-C-[IKRQVHEC]- [SPRT]-[STCVQPR].|9.					keratin filament					0						GCAGCTGGGGCGACAGCAGGT	0.592													9	11					0	0	0.003163	0	0	
KRTAP9-9	81870	broad.mit.edu	37	17	39411940	39411940	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:39411940C>T	uc010wfq.1	+	3	260	c.258C>T	c.(256-258)GGC>GGT	p.G86G		NM_030975	NP_112237	B5MDD6	B5MDD6_HUMAN	keratin associated protein 9-9	101						keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000397)			CCAGCTGTGGCCAGAGCAGCT	0.617													4	34					0	0	0.000602	0	0	
KRT33A	3883	broad.mit.edu	37	17	39502732	39502732	+	Silent	SNP	C	T	T	rs57495682	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:39502732C>T	uc002hwk.1	-	6	1102	c.1065G>A	c.(1063-1065)ACG>ACA	p.T355T		NM_004138	NP_004129	O76009	KT33A_HUMAN	keratin 33A	355	Coil 2.|Rod.					intermediate filament	protein binding|structural molecule activity				0		Breast(137;0.000496)				GGCTCCGGTACGTGTTGATCT	0.577													10	71					0	0	0.001855	0	0	
KRT36	8689	broad.mit.edu	37	17	39645870	39645870	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:39645870A>G	uc002hwt.2	-	1	247	c.247T>C	c.(247-249)TGG>CGG	p.W83R		NM_003771	NP_003762	O76013	KRT36_HUMAN	keratin 36	83	Head.					intermediate filament	protein binding|structural constituent of epidermis				0		Breast(137;0.000286)				TCGCAGAACCAGCCCCCGCTC	0.622													4	41					0	0	0.000602	0	0	
KRT13	3860	broad.mit.edu	37	17	39658842	39658842	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:39658842G>A	uc002hwu.1	-	6	1091	c.1028C>T	c.(1027-1029)GCG>GTG	p.A343V	KRT13_uc002hwv.1_Missense_Mutation_p.A343V|KRT13_uc002hww.2_Missense_Mutation_p.A236V|KRT13_uc010wfr.1_Missense_Mutation_p.A236V|KRT13_uc010cxo.2_Missense_Mutation_p.A343V|KRT13_uc002hwx.1_Missense_Mutation_p.A331V	NM_153490	NP_705694	P13646	K1C13_HUMAN	keratin 13 isoform a	343	Rod.|Coil 2.				epidermis development	intermediate filament	structural molecule activity			ovary(2)|skin(2)|pancreas(1)	5		Breast(137;0.000286)				CTCCAGCCCCGCTTTCTGGTG	0.627													23	30					0	0	0.002299	0	0	
KRT13	3860	broad.mit.edu	37	17	39661466	39661466	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:39661466C>T	uc002hwu.1	-	1	400	c.337G>A	c.(337-339)GAC>AAC	p.D113N	KRT13_uc002hwv.1_Missense_Mutation_p.D113N|KRT13_uc002hww.2_Missense_Mutation_p.D6N|KRT13_uc010wfr.1_Missense_Mutation_p.D6N|KRT13_uc010cxo.2_Missense_Mutation_p.D113N|KRT13_uc002hwx.1_Missense_Mutation_p.D101N	NM_153490	NP_705694	P13646	K1C13_HUMAN	keratin 13 isoform a	113	Coil 1A.|Rod.				epidermis development	intermediate filament	structural molecule activity			ovary(2)|skin(2)|pancreas(1)	5		Breast(137;0.000286)				GCCAGGCGGTCGTTGAGGTTC	0.438													17	75					0	0	0.007413	0	0	
RAB5C	5878	broad.mit.edu	37	17	40280741	40280741	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:40280741G>A	uc002hyz.2	-	4	561	c.244C>T	c.(244-246)CGG>TGG	p.R82W	RAB5C_uc002hza.2_Missense_Mutation_p.R82W|RAB5C_uc010cxx.2_Missense_Mutation_p.R115W|RAB5C_uc010cxy.2_5'UTR	NM_201434	NP_958842	P51148	RAB5C_HUMAN	RAB5C, member RAS oncogene family isoform a	82					protein transport|small GTPase mediated signal transduction	early endosome membrane|melanosome|plasma membrane	GTP binding|GTPase activity|protein binding			large_intestine(1)|skin(1)	2		all_cancers(22;1.24e-06)|all_epithelial(22;4.33e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.128)		CTGTGATACCGCTCCTGTCCA	0.547													9	36					0	0	0.008291	0	0	
GHDC	84514	broad.mit.edu	37	17	40344954	40344954	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:40344954T>C	uc002hzd.2	-	3	841	c.357A>G	c.(355-357)TCA>TCG	p.S119S	GHDC_uc002hzg.1_Silent_p.S119S|GHDC_uc010wgg.1_Intron|GHDC_uc002hze.3_Silent_p.S119S|GHDC_uc002hzf.3_Silent_p.S119S|GHDC_uc010cxz.2_RNA	NM_032484	NP_115873	Q8N2G8	GHDC_HUMAN	LGP1 homolog isoform 1	119						endoplasmic reticulum|nuclear envelope					0		all_cancers(22;0.000229)|Breast(137;0.00104)|all_epithelial(22;0.00304)		BRCA - Breast invasive adenocarcinoma(366;0.124)		GGTCCTGGTTTGAGGTCGGGG	0.607													4	51					0	0	0.001168	0	0	
STAT3	6774	broad.mit.edu	37	17	40476753	40476753	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:40476753T>C	uc002hzl.1	-	17	1816	c.1576A>G	c.(1576-1578)ACT>GCT	p.T526A	STAT3_uc002hzk.1_Missense_Mutation_p.T526A|STAT3_uc002hzm.1_Missense_Mutation_p.T526A|STAT3_uc010wgh.1_Missense_Mutation_p.T428A|STAT3_uc002hzn.1_Missense_Mutation_p.T526A	NM_139276	NP_644805	P40763	STAT3_HUMAN	signal transducer and activator of transcription	526					cellular component movement|eating behavior|eye photoreceptor cell differentiation|glucose homeostasis|interleukin-6-mediated signaling pathway|interspecies interaction between organisms|JAK-STAT cascade involved in growth hormone signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|protein import into nucleus|response to estradiol stimulus|sexual reproduction|temperature homeostasis	cytosol|nucleus|plasma membrane	calcium ion binding|ligand-regulated transcription factor activity|protein dimerization activity|protein kinase binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription factor binding|transcription regulatory region DNA binding			ovary(1)|lung(1)|breast(1)|central_nervous_system(1)	4		all_cancers(22;1.39e-06)|all_epithelial(22;2.95e-05)|Breast(137;0.000135)		BRCA - Breast invasive adenocarcinoma(366;0.139)		GCCAGTGTAGTCAGCTGCTCG	0.587									Hyperimmunoglobulin_E_Recurrent_Infection_Syndrome				10	17					0	0	0.006214	0	0	
STAT3	6774	broad.mit.edu	37	17	40489528	40489528	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:40489528G>T	uc002hzl.1	-	8	962	c.722C>A	c.(721-723)GCT>GAT	p.A241D	STAT3_uc002hzk.1_Missense_Mutation_p.A241D|STAT3_uc002hzm.1_Missense_Mutation_p.A241D|STAT3_uc010wgh.1_Missense_Mutation_p.A143D|STAT3_uc002hzn.1_Missense_Mutation_p.A241D	NM_139276	NP_644805	P40763	STAT3_HUMAN	signal transducer and activator of transcription	241					cellular component movement|eating behavior|eye photoreceptor cell differentiation|glucose homeostasis|interleukin-6-mediated signaling pathway|interspecies interaction between organisms|JAK-STAT cascade involved in growth hormone signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|protein import into nucleus|response to estradiol stimulus|sexual reproduction|temperature homeostasis	cytosol|nucleus|plasma membrane	calcium ion binding|ligand-regulated transcription factor activity|protein dimerization activity|protein kinase binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription factor binding|transcription regulatory region DNA binding			ovary(1)|lung(1)|breast(1)|central_nervous_system(1)	4		all_cancers(22;1.39e-06)|all_epithelial(22;2.95e-05)|Breast(137;0.000135)		BRCA - Breast invasive adenocarcinoma(366;0.139)		CTTCCAGTCAGCCAGCTCCTC	0.527									Hyperimmunoglobulin_E_Recurrent_Infection_Syndrome				18	35					3.17567e-06	3.36039e-06	0.008361	1	0	
CNTNAP1	8506	broad.mit.edu	37	17	40845456	40845456	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:40845456G>A	uc002iay.2	+	18	3110	c.2894G>A	c.(2893-2895)CGG>CAG	p.R965Q	CNTNAP1_uc010wgs.1_RNA	NM_003632	NP_003623	P78357	CNTP1_HUMAN	contactin associated protein 1 precursor	965	EGF-like 2.|Extracellular (Potential).				axon guidance|cell adhesion	paranode region of axon	receptor activity|receptor binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(3)|breast(3)|upper_aerodigestive_tract(1)|lung(1)	8		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.143)		GCCCACCCTCGGCTCCCCTGT	0.607													14	32					0	0	0.006122	0	0	
WNK4	65266	broad.mit.edu	37	17	40947525	40947525	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:40947525C>T	uc002ibj.2	+	15	3029	c.3008C>T	c.(3007-3009)GCG>GTG	p.A1003V	WNK4_uc010wgx.1_Missense_Mutation_p.A667V|CCDC56_uc010wgz.1_3'UTR	NM_032387	NP_115763	Q96J92	WNK4_HUMAN	WNK lysine deficient protein kinase 4	1003					intracellular protein kinase cascade	tight junction	ATP binding|protein serine/threonine kinase activity			ovary(3)|skin(3)|stomach(1)	7		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.0749)		GCCAGGCTGGCGCCCATCTCT	0.587													14	27					0	0	0.003163	0	0	
CNTD1	124817	broad.mit.edu	37	17	40958800	40958800	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:40958800C>T	uc002ibm.3	+	5	921	c.689C>T	c.(688-690)GCT>GTT	p.A230V	CNTD1_uc010wha.1_Missense_Mutation_p.A147V	NM_173478	NP_775749	Q8N815	CNTD1_HUMAN	cyclin N-terminal domain containing 1	230										central_nervous_system(1)	1		Breast(137;0.00104)		BRCA - Breast invasive adenocarcinoma(366;0.0749)		CTGTTGAGGGCTTCAATTGAG	0.527													9	78					0	0	0.008291	0	0	
MPP3	4356	broad.mit.edu	37	17	41891392	41891392	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:41891392G>A	uc002iei.3	-	16	1408	c.1242C>T	c.(1240-1242)GGC>GGT	p.G414G	MPP3_uc002ieh.2_Silent_p.G439G|MPP3_uc002iej.2_RNA	NM_001932	NP_001923	Q13368	MPP3_HUMAN	palmitoylated membrane protein 3	414	Guanylate kinase-like.				signal transduction	cell surface|integral to plasma membrane	guanylate kinase activity			large_intestine(1)|skin(1)	2		Breast(137;0.00394)		BRCA - Breast invasive adenocarcinoma(366;0.119)		GAACAGCGACGCCAAAGTGCT	0.547													34	73					0	0	0.008740	0	0	
C17orf53	78995	broad.mit.edu	37	17	42232005	42232005	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:42232005G>A	uc002ifi.1	+	6	1719	c.1534G>A	c.(1534-1536)GCC>ACC	p.A512T	C17orf53_uc010czq.1_Missense_Mutation_p.A511T|C17orf53_uc002ifj.1_Missense_Mutation_p.A436T|C17orf53_uc002ifk.1_RNA	NM_024032	NP_076937	Q8N3J3	CQ053_HUMAN	hypothetical protein LOC78995	512											0		Breast(137;0.0364)|Prostate(33;0.0376)		BRCA - Breast invasive adenocarcinoma(366;0.114)		CACAATGGACGCCAGTGTGGT	0.552													6	51					0	0	0.001984	0	0	
SLC4A1	6521	broad.mit.edu	37	17	42335832	42335832	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:42335832G>A	uc002igf.3	-	10	1185	c.1036C>T	c.(1036-1038)CGC>TGC	p.R346C	SLC4A1_uc002igg.3_Missense_Mutation_p.R346C	NM_000342	NP_000333	P02730	B3AT_HUMAN	solute carrier family 4, anion exchanger, member	346	Cytoplasmic.				bicarbonate transport|cellular ion homeostasis	basolateral plasma membrane|cortical cytoskeleton|integral to plasma membrane|Z disc	ankyrin binding|chloride transmembrane transporter activity|inorganic anion exchanger activity|protein anchor|protein homodimerization activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(137;0.014)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.115)		GACTGATAGCGCCTTCGAAGT	0.642													19	59					0	0	0.010504	0	0	
GPATCH8	23131	broad.mit.edu	37	17	42476588	42476588	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:42476588G>A	uc002igw.1	-	8	2921	c.2857C>T	c.(2857-2859)CGC>TGC	p.R953C	GPATCH8_uc002igv.1_Missense_Mutation_p.R875C|GPATCH8_uc010wiz.1_Missense_Mutation_p.R875C	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	953	Ser-rich.					intracellular	nucleic acid binding|zinc ion binding			ovary(2)|kidney(1)|skin(1)	4		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)		GATCTTGAGCGCTCTCTGGTA	0.567													6	22					0	0	0.000978	0	0	
GPATCH8	23131	broad.mit.edu	37	17	42476724	42476724	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:42476724G>A	uc002igw.1	-	8	2785	c.2721C>T	c.(2719-2721)CGC>CGT	p.R907R	GPATCH8_uc002igv.1_Silent_p.R829R|GPATCH8_uc010wiz.1_Silent_p.R829R	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	907	Ser-rich.					intracellular	nucleic acid binding|zinc ion binding			ovary(2)|kidney(1)|skin(1)	4		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)		AGTCATGGGAGCGCTTGGAGT	0.488													11	37					0	0	0.000978	0	0	
GPATCH8	23131	broad.mit.edu	37	17	42580708	42580708	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:42580708C>T	uc002igw.1	-	1	95	c.31G>A	c.(31-33)GAC>AAC	p.D11N	GPATCH8_uc010wiz.1_5'UTR	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	11						intracellular	nucleic acid binding|zinc ion binding			ovary(2)|kidney(1)|skin(1)	4		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)		AAGTCTCGGTCTTCGTTGAAG	0.627													7	4					0	0	0.004482	0	0	
EFTUD2	9343	broad.mit.edu	37	17	42956967	42956967	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:42956967C>T	uc002ihn.2	-	9	920	c.659G>A	c.(658-660)CGC>CAC	p.R220H	EFTUD2_uc010wje.1_Missense_Mutation_p.R185H|EFTUD2_uc010wjf.1_Missense_Mutation_p.R210H	NM_004247	NP_004238	Q15029	U5S1_HUMAN	elongation factor Tu GTP binding domain	220						Cajal body|catalytic step 2 spliceosome|cytoplasm|nuclear speck	GTP binding|GTPase activity|protein binding			ovary(1)	1		Prostate(33;0.109)				ATCTGAGATGCGCAAGCCAGC	0.478													22	59					0	0	0.003330	0	0	
FMNL1	752	broad.mit.edu	37	17	43315992	43315992	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:43315992A>G	uc002iin.2	+	10	1156	c.956A>G	c.(955-957)AAC>AGC	p.N319S	FMNL1_uc002iiq.2_5'Flank	NM_005892	NP_005883	O95466	FMNL_HUMAN	formin-like 1	319	GBD/FH3.				actin cytoskeleton organization		actin binding|Rho GTPase binding			pancreas(1)	1						GAGGACAGCAACATCGACTTC	0.597													13	45					0	0	0.002450	0	0	
MAP3K14	9020	broad.mit.edu	37	17	43351908	43351908	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:43351908G>A	uc002iiw.1	-	8	1452	c.1343C>T	c.(1342-1344)ACC>ATC	p.T448I	MAP3K14_uc002iiu.1_5'Flank|MAP3K14_uc010daj.1_RNA|MAP3K14_uc002iiv.1_Missense_Mutation_p.T32I	NM_003954	NP_003945	Q99558	M3K14_HUMAN	mitogen-activated protein kinase kinase kinase	448	Interaction with ZFP91.|Protein kinase.				cellular response to mechanical stimulus|I-kappaB kinase/NF-kappaB cascade|immune response|positive regulation of I-kappaB kinase/NF-kappaB cascade|T cell costimulation	cytosol	ATP binding|MAP kinase kinase kinase activity|NF-kappaB-inducing kinase activity|protein binding			central_nervous_system(3)|breast(2)|lung(1)|ovary(1)|stomach(1)	8						TCTGGGTGAGGTCAATCCTGC	0.562													4	27					0	0	0.009096	0	0	
KIAA1267	284058	broad.mit.edu	37	17	44115975	44115975	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:44115975G>A	uc002ikb.2	-	9	2555	c.2470C>T	c.(2470-2472)CGA>TGA	p.R824*	KIAA1267_uc002ikc.2_Nonsense_Mutation_p.R824*|KIAA1267_uc002ikd.2_Nonsense_Mutation_p.R824*|KIAA1267_uc010dav.2_Nonsense_Mutation_p.R824*|KIAA1267_uc010wkb.1_Nonsense_Mutation_p.R155*|KIAA1267_uc010wkc.1_Nonsense_Mutation_p.R92*	NM_015443	NP_056258	Q7Z3B3	K1267_HUMAN	hypothetical protein LOC284058	824						MLL1 complex	protein binding			skin(2)	2		Melanoma(429;0.211)				GAGAGCTGTCGCACCAAGGGA	0.562													14	24					0	0	0.002450	0	0	
WNT3	7473	broad.mit.edu	37	17	44845861	44845861	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:44845861C>T	uc002ikv.2	-	4	1012	c.893G>A	c.(892-894)CGG>CAG	p.R298Q		NM_030753	NP_110380	P56703	WNT3_HUMAN	wingless-type MMTV integration site family,	298					canonical Wnt receptor signaling pathway involved in mesenchymal stem cell differentiation|canonical Wnt receptor signaling pathway involved in osteoblast differentiation|cellular response to retinoic acid|dorsal/ventral axis specification|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic pattern specification|head morphogenesis|hemopoietic stem cell proliferation|inner ear morphogenesis|limb bud formation|mammary gland epithelium development|mesoderm formation|midbrain-hindbrain boundary development|negative regulation of fat cell differentiation|positive regulation of cell proliferation|Spemann organizer formation at the anterior end of the primitive streak|Wnt receptor signaling pathway, calcium modulating pathway	early endosome|extracellular space|late endosome|membrane fraction|membrane raft|plasma membrane|proteinaceous extracellular matrix	frizzled binding|frizzled-2 binding|signal transducer activity			lung(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.0257)			ATTGCAAGTCCGGTCCCTTGT	0.592													25	57					0	0	0.002780	0	0	
WNT3	7473	broad.mit.edu	37	17	44846086	44846086	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:44846086G>A	uc002ikv.2	-	4	787	c.668C>T	c.(667-669)GCG>GTG	p.A223V		NM_030753	NP_110380	P56703	WNT3_HUMAN	wingless-type MMTV integration site family,	223					canonical Wnt receptor signaling pathway involved in mesenchymal stem cell differentiation|canonical Wnt receptor signaling pathway involved in osteoblast differentiation|cellular response to retinoic acid|dorsal/ventral axis specification|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic pattern specification|head morphogenesis|hemopoietic stem cell proliferation|inner ear morphogenesis|limb bud formation|mammary gland epithelium development|mesoderm formation|midbrain-hindbrain boundary development|negative regulation of fat cell differentiation|positive regulation of cell proliferation|Spemann organizer formation at the anterior end of the primitive streak|Wnt receptor signaling pathway, calcium modulating pathway	early endosome|extracellular space|late endosome|membrane fraction|membrane raft|plasma membrane|proteinaceous extracellular matrix	frizzled binding|frizzled-2 binding|signal transducer activity			lung(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.0257)			GTCAGGCTGCGCCCACCAGCA	0.602													10	37					0	0	0.001368	0	0	
WNT3	7473	broad.mit.edu	37	17	44851186	44851186	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:44851186C>T	uc002ikv.2	-	2	289	c.170G>A	c.(169-171)CGC>CAC	p.R57H		NM_030753	NP_110380	P56703	WNT3_HUMAN	wingless-type MMTV integration site family,	57					canonical Wnt receptor signaling pathway involved in mesenchymal stem cell differentiation|canonical Wnt receptor signaling pathway involved in osteoblast differentiation|cellular response to retinoic acid|dorsal/ventral axis specification|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic pattern specification|head morphogenesis|hemopoietic stem cell proliferation|inner ear morphogenesis|limb bud formation|mammary gland epithelium development|mesoderm formation|midbrain-hindbrain boundary development|negative regulation of fat cell differentiation|positive regulation of cell proliferation|Spemann organizer formation at the anterior end of the primitive streak|Wnt receptor signaling pathway, calcium modulating pathway	early endosome|extracellular space|late endosome|membrane fraction|membrane raft|plasma membrane|proteinaceous extracellular matrix	frizzled binding|frizzled-2 binding|signal transducer activity			lung(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.0257)			GCGGCAGAAGCGCAGTTGCTT	0.662													8	9					0	0	0.008291	0	0	
ITGB3	3690	broad.mit.edu	37	17	45368350	45368350	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:45368350C>T	uc002ilj.2	+	9	1176	c.1156C>T	c.(1156-1158)CGT>TGT	p.R386C	ITGB3_uc002ili.1_Missense_Mutation_p.R386C|ITGB3_uc010wkr.1_RNA	NM_000212	NP_000203	P05106	ITB3_HUMAN	integrin beta chain, beta 3 precursor	386	Extracellular (Potential).				activation of protein kinase activity|angiogenesis involved in wound healing|axon guidance|cell-matrix adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte migration|negative regulation of lipid storage|negative regulation of lipid transport|negative regulation of lipoprotein metabolic process|negative regulation of low-density lipoprotein particle receptor biosynthetic process|negative regulation of macrophage derived foam cell differentiation|platelet activation|platelet degranulation|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway|regulation of bone resorption|smooth muscle cell migration|tube development	alphav-beta3 integrin-vitronectin complex|integrin complex|platelet alpha granule membrane	cell adhesion molecule binding|identical protein binding|platelet-derived growth factor receptor binding|receptor activity|vascular endothelial growth factor receptor 2 binding			central_nervous_system(5)|large_intestine(1)	6					Abciximab(DB00054)|Tirofiban(DB00775)	GCTGGAAGTGCGTGACCTCCC	0.473													23	67					0	0	0.004656	0	0	
SCRN2	90507	broad.mit.edu	37	17	45915225	45915225	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:45915225G>A	uc002imd.2	-	8	1389	c.1263C>T	c.(1261-1263)AGC>AGT	p.S421S	SCRN2_uc002imc.2_Silent_p.S429S|SCRN2_uc002imf.2_3'UTR|SCRN2_uc002ime.2_RNA	NM_138355	NP_612364	Q96FV2	SCRN2_HUMAN	secernin 2 isoform 1	421					proteolysis		dipeptidase activity			ovary(1)	1						CATAAGCCTGGCTCTCCCTCT	0.657													5	12					0	0	0.000602	0	0	
SCRN2	90507	broad.mit.edu	37	17	45915694	45915694	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:45915694C>T	uc002imd.2	-	7	1187	c.1061G>A	c.(1060-1062)CGT>CAT	p.R354H	SCRN2_uc002imc.2_Missense_Mutation_p.R362H|SCRN2_uc002imf.2_Missense_Mutation_p.R354H|SCRN2_uc002ime.2_RNA	NM_138355	NP_612364	Q96FV2	SCRN2_HUMAN	secernin 2 isoform 1	354					proteolysis		dipeptidase activity			ovary(1)	1						GGTATGCCGACGATCTACCTG	0.622													25	32					0	0	0.006320	0	0	
HOXB1	3211	broad.mit.edu	37	17	46607897	46607897	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:46607897A>G	uc002ink.1	-	1	376	c.370T>C	c.(370-372)TCC>CCC	p.S124P		NM_002144	NP_002135	P14653	HXB1_HUMAN	homeobox B1	124						nucleus	protein domain specific binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						TAGCCATCGGACAAGCCCCCT	0.627													5	28					0	0	0.001984	0	0	
HOXB8	3218	broad.mit.edu	37	17	46690756	46690756	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:46690756C>T	uc002inw.2	-	2	775	c.540G>A	c.(538-540)TCG>TCA	p.S180S	HOXB7_uc002inv.2_5'Flank	NM_024016	NP_076921	P17481	HXB8_HUMAN	homeobox B8	180	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						CCAGGGCGTGCGATACCTCGA	0.532													7	104					0	0	0.001984	0	0	
ABI3	51225	broad.mit.edu	37	17	47295191	47295191	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:47295191G>A	uc002iop.1	+	3	874	c.376G>A	c.(376-378)GCC>ACC	p.A126T	ABI3_uc002ioq.1_Missense_Mutation_p.A120T	NM_016428	NP_057512	Q9P2A4	ABI3_HUMAN	NESH protein isoform 1	126					cellular component movement|regulation of cell migration	cytoplasm|lamellipodium	protein binding				0			Epithelial(5;6.37e-06)|all cancers(6;6.36e-05)			GAAGGTCATCGCCCCAGAGAA	0.607										HNSCC(55;0.14)			9	22					0	0	0.008291	0	0	
PHB	5245	broad.mit.edu	37	17	47486737	47486737	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:47486737G>A	uc002iox.1	-	4	422	c.349C>T	c.(349-351)CGT>TGT	p.R117C		NM_002634	NP_002625	P35232	PHB_HUMAN	prohibitin	117					cellular response to interleukin-6|DNA replication|glucocorticoid receptor signaling pathway|histone deacetylation|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of transcription by competitive promoter binding|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|progesterone receptor signaling pathway|regulation of apoptosis	integral to plasma membrane|mitochondrial inner membrane|nucleoplasm	histone deacetylase binding|transcription regulatory region DNA binding				0	all_cancers(4;2.62e-14)|Breast(4;4.21e-29)|all_epithelial(4;6.9e-18)		Epithelial(5;8.1e-06)|all cancers(6;7.71e-05)			GGCAGCACACGCTCATCATAG	0.572													12	18					0	0	0.002450	0	0	
NGFR	4804	broad.mit.edu	37	17	47583719	47583719	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:47583719C>T	uc002ioz.3	+	3	392	c.267C>T	c.(265-267)TGC>TGT	p.C89C		NM_002507	NP_002498	P08138	TNR16_HUMAN	nerve growth factor receptor precursor	89	Extracellular (Potential).|TNFR-Cys 2.				anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|membrane protein intracellular domain proteolysis|negative regulation of axonogenesis|negative regulation of cell cycle|nerve growth factor receptor signaling pathway|positive regulation of axonogenesis	cell surface|cytosol|endosome|extracellular region|integral to plasma membrane|nucleoplasm				ovary(1)|lung(1)	2	all_cancers(4;1.45e-13)|Breast(4;6.34e-28)|all_epithelial(4;4.95e-17)					GCACCGAGTGCGTGGGGCTCC	0.672													4	3					0	0	0.001168	0	0	
MYST2	11143	broad.mit.edu	37	17	47898713	47898713	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:47898713G>A	uc002ipm.2	+	10	1296	c.1170G>A	c.(1168-1170)TGG>TGA	p.W390*	MYST2_uc002ipl.1_Nonsense_Mutation_p.W360*|MYST2_uc010wma.1_Nonsense_Mutation_p.W251*|MYST2_uc010wmb.1_Nonsense_Mutation_p.W280*|MYST2_uc010wmc.1_Nonsense_Mutation_p.W221*|MYST2_uc010wmd.1_Nonsense_Mutation_p.W234*|MYST2_uc010wme.1_Nonsense_Mutation_p.W204*|MYST2_uc010wmf.1_Nonsense_Mutation_p.W55*|MYST2_uc010wmg.1_5'UTR	NM_007067	NP_008998	O95251	MYST2_HUMAN	MYST histone acetyltransferase 2	390					DNA replication|histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation	histone acetyltransferase complex	histone acetyltransferase activity|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3						AATGTGTGTGGAAACACCCAC	0.428													11	38					0	0	0.000978	0	0	
ITGA3	3675	broad.mit.edu	37	17	48145498	48145498	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:48145498C>T	uc010dbl.2	+	4	957	c.493C>T	c.(493-495)CGA>TGA	p.R165*	ITGA3_uc010dbm.2_Nonsense_Mutation_p.R165*	NM_002204	NP_002195	P26006	ITA3_HUMAN	integrin alpha 3 isoform a precursor	165	FG-GAP 2.|Extracellular (Potential).				blood coagulation|cell-matrix adhesion|integrin-mediated signaling pathway|leukocyte migration	cell surface|integrin complex	protein binding|receptor activity			ovary(2)|pancreas(1)	3						GTGCTACGTGCGAGGCAATGA	0.597													8	73					0	0	0.006214	0	0	
PPP1R9B	84687	broad.mit.edu	37	17	48212980	48212980	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:48212980G>A	uc002iqh.3	-	11	2341	c.2338C>T	c.(2338-2340)CGT>TGT	p.R780C		NM_032595	NP_115984	Q96SB3	NEB2_HUMAN	protein phosphatase 1, regulatory subunit 9B	778	Potential.|Interacts with TGN38 (By similarity).				cell cycle arrest|cell differentiation|cell migration|filopodium assembly|negative regulation of cell growth|nervous system development|regulation of cell growth by extracellular stimulus|regulation of cell proliferation|regulation of exit from mitosis|RNA splicing	adherens junction|cytoskeleton|dendritic spine|filopodium|lamellipodium|nucleoplasm|protein phosphatase type 1 complex|ruffle membrane|synapse	actin binding|protein phosphatase 1 binding|protein phosphatase inhibitor activity				0						AGAACCCGACGCTGTGCAGTC	0.622													3	7					0	0	0.001984	0	0	
COL1A1	1277	broad.mit.edu	37	17	48274561	48274561	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:48274561G>A	uc002iqm.2	-	10	856	c.730C>T	c.(730-732)CGT>TGT	p.R244C		NM_000088	NP_000079	P02452	CO1A1_HUMAN	alpha 1 type I collagen preproprotein	244	Triple-helical region.				axon guidance|blood vessel development|collagen biosynthetic process|collagen fibril organization|embryonic skeletal system development|leukocyte migration|platelet activation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|protein localization to nucleus|sensory perception of sound|skin morphogenesis|tooth mineralization|visual perception	collagen type I|extracellular space|plasma membrane	identical protein binding|platelet-derived growth factor binding	p.R244H(1)	COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(7)|skin(1)|breast(1)|pancreas(1)	382					Collagenase(DB00048)|Palifermin(DB00039)	GGAGGCCCACGCTCACCAGGA	0.607			T	PDGFB|USP6	dermatofibrosarcoma protuberans|aneurysmal bone cyst 		Osteogenesis imperfecta						15	29					0	0	0.004990	0	0	
XYLT2	64132	broad.mit.edu	37	17	48433538	48433538	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:48433538C>A	uc002iqo.2	+	7	1507	c.1398C>A	c.(1396-1398)GGC>GGA	p.G466G	XYLT2_uc010dbo.2_RNA	NM_022167	NP_071450	Q9H1B5	XYLT2_HUMAN	xylosyltransferase II	466	Lumenal (Potential).				glycosaminoglycan biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity|protein xylosyltransferase activity			pancreas(1)	1	Breast(11;7.18e-19)					GCAAGCTGGGCTGCAAGTGCC	0.612													7	41					0.00307968	0.00319789	0.003080	1	0	
EME1	146956	broad.mit.edu	37	17	48452901	48452901	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:48452901G>A	uc002iqs.1	+	2	405	c.332G>A	c.(331-333)AGC>AAC	p.S111N	MRPL27_uc002iqq.2_5'Flank|MRPL27_uc002iqr.2_5'Flank|EME1_uc010dbp.1_Missense_Mutation_p.S111N	NM_152463	NP_689676	Q96AY2	EME1_HUMAN	essential meiotic endonuclease 1 homolog 1	111					DNA recombination|DNA repair	nucleolus	DNA binding|endonuclease activity|metal ion binding|protein binding				0	Breast(11;5.62e-19)		BRCA - Breast invasive adenocarcinoma(22;2.43e-08)			AAGCAACTGAGCCCTGAGGAC	0.433								Direct_reversal_of_damage|Homologous_recombination					5	106					0	0	0.000602	0	0	
EPN3	55040	broad.mit.edu	37	17	48614339	48614339	+	Missense_Mutation	SNP	G	A	A	rs141722620	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:48614339G>A	uc002ira.3	+	2	857	c.422G>A	c.(421-423)CGG>CAG	p.R141Q	EPN3_uc010wms.1_Missense_Mutation_p.R196Q|EPN3_uc010wmt.1_RNA|EPN3_uc010wmu.1_Missense_Mutation_p.R141Q	NM_017957	NP_060427	Q9H201	EPN3_HUMAN	epsin 3	141	ENTH.					clathrin-coated vesicle|nucleus|perinuclear region of cytoplasm	lipid binding			ovary(1)	1	Breast(11;1.23e-18)		BRCA - Breast invasive adenocarcinoma(22;2.88e-09)			GAGCGGCTGCGGCAGGAGCGA	0.657													3	10					0	0	0.000602	0	0	
ABCC3	8714	broad.mit.edu	37	17	48755223	48755223	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:48755223G>A	uc002isl.2	+	24	3577	c.3497G>A	c.(3496-3498)CGC>CAC	p.R1166H	ABCC3_uc002isn.2_5'Flank	NM_003786	NP_003777	O15438	MRP3_HUMAN	ATP-binding cassette, sub-family C, member 3	1166	ABC transmembrane type-1 2.|Cytoplasmic (By similarity).				bile acid metabolic process	integral to plasma membrane|membrane fraction	ATP binding|bile acid-exporting ATPase activity|organic anion transmembrane transporter activity			skin(3)|central_nervous_system(1)	4			BRCA - Breast invasive adenocarcinoma(22;3.05e-09)		Glibenclamide(DB01016)	GCCTACAACCGCAGCCGGGAT	0.557													8	114					0	0	0.006214	0	0	
SPAG9	9043	broad.mit.edu	37	17	49091605	49091605	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:49091605C>A	uc002itc.2	-	9	1410	c.1201G>T	c.(1201-1203)GCA>TCA	p.A401S	SPAG9_uc002itb.2_Missense_Mutation_p.A387S|SPAG9_uc002itd.2_Missense_Mutation_p.A387S|SPAG9_uc002itf.2_Missense_Mutation_p.A222S|SPAG9_uc002ita.2_Missense_Mutation_p.A244S|SPAG9_uc002ite.2_Missense_Mutation_p.A231S	NM_001130528	NP_001124000	O60271	JIP4_HUMAN	sperm associated antigen 9 isoform 1	401					positive regulation of cell migration|positive regulation of muscle cell differentiation|retrograde transport, endosome to Golgi|spermatogenesis	acrosomal vesicle|integral to membrane|perinuclear region of cytoplasm				lung(4)|breast(1)	5			BRCA - Breast invasive adenocarcinoma(22;4.24e-07)			AGTAAATCTGCTCCTTCATCC	0.348													6	101					0.00116845	0.00121571	0.001168	1	0	
SPAG9	9043	broad.mit.edu	37	17	49119004	49119004	+	Missense_Mutation	SNP	C	T	T	rs139684309		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:49119004C>T	uc002itc.2	-	5	808	c.599G>A	c.(598-600)CGC>CAC	p.R200H	SPAG9_uc002itb.2_Missense_Mutation_p.R200H|SPAG9_uc002itd.2_Missense_Mutation_p.R200H|SPAG9_uc002itf.2_Missense_Mutation_p.R35H|SPAG9_uc002ita.2_Missense_Mutation_p.R57H|SPAG9_uc002ite.2_Missense_Mutation_p.R30H|SPAG9_uc002itg.2_Missense_Mutation_p.R57H	NM_001130528	NP_001124000	O60271	JIP4_HUMAN	sperm associated antigen 9 isoform 1	200					positive regulation of cell migration|positive regulation of muscle cell differentiation|retrograde transport, endosome to Golgi|spermatogenesis	acrosomal vesicle|integral to membrane|perinuclear region of cytoplasm				lung(4)|breast(1)	5			BRCA - Breast invasive adenocarcinoma(22;4.24e-07)			TGATATAGGGCGTTCTTTTCT	0.403													30	86					0	0	0.009535	0	0	
KIF2B	84643	broad.mit.edu	37	17	51901021	51901021	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:51901021G>A	uc002iua.2	+	1	783	c.627G>A	c.(625-627)CCG>CCA	p.P209P	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	209					blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						TGGAGCCCCCGCAAGAACATC	0.537													12	40					0	0	0.003163	0	0	
TMEM100	55273	broad.mit.edu	37	17	53798230	53798230	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:53798230C>T	uc002iuj.3	-	2	513	c.202G>A	c.(202-204)GGC>AGC	p.G68S	TMEM100_uc002iuk.3_Missense_Mutation_p.G68S	NM_018286	NP_060756	Q9NV29	TM100_HUMAN	transmembrane protein 100	68	Helical; (Potential).					integral to membrane					0						ACCACGATGCCGGCGATGAAG	0.527													30	67					0	0	0.003271	0	0	
DGKE	8526	broad.mit.edu	37	17	54925404	54925404	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:54925404C>T	uc002iur.2	+	5	1046	c.866C>T	c.(865-867)GCA>GTA	p.A289V	DGKE_uc002ius.1_Missense_Mutation_p.A289V	NM_003647	NP_003638	P52429	DGKE_HUMAN	diacylglycerol kinase epsilon	289	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|phospholipid biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding|protein binding			breast(2)	2	Breast(9;3.59e-07)					GTCCTGGATGCAGTTGATGAC	0.373													4	58					0	0	0.009096	0	0	
TRIM25	7706	broad.mit.edu	37	17	54976496	54976496	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:54976496C>T	uc002iut.2	-	5	1193	c.1133G>A	c.(1132-1134)CGC>CAC	p.R378H	TRIM25_uc010dcj.2_Missense_Mutation_p.R170H	NM_005082	NP_005073	Q14258	TRI25_HUMAN	tripartite motif-containing 25	378	Interaction with influenza A virus NS1.				innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|response to virus	cell junction|cytosol|nucleus	sequence-specific DNA binding transcription factor activity|ubiquitin-protein ligase activity|zinc ion binding			lung(1)|breast(1)|skin(1)	3	Breast(9;6.15e-08)					CTTCACAGGGCGTGTGGATTT	0.602													11	40					0	0	0.001855	0	0	
AKAP1	8165	broad.mit.edu	37	17	55184443	55184443	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:55184443A>G	uc002iux.2	+	2	1849	c.1618A>G	c.(1618-1620)ACT>GCT	p.T540A	AKAP1_uc010wnl.1_Missense_Mutation_p.T540A|AKAP1_uc002iuy.2_RNA|AKAP1_uc010dcm.2_Missense_Mutation_p.T540A	NM_003488	NP_003479	Q92667	AKAP1_HUMAN	A-kinase anchor protein 1 precursor	540					blood coagulation	cytosol|integral to membrane|mitochondrial outer membrane	protein binding|RNA binding			ovary(1)	1	Breast(9;5.46e-08)					GCCAGAAAGTACTGTGCCCTT	0.567													4	70					0	0	0.009096	0	0	
LPO	4025	broad.mit.edu	37	17	56326511	56326511	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:56326511G>A	uc002ivt.2	+	5	732	c.416G>A	c.(415-417)CGC>CAC	p.R139H	LPO_uc010dco.2_Missense_Mutation_p.R139H|LPO_uc010wnr.1_Missense_Mutation_p.R56H|LPO_uc010wns.1_Missense_Mutation_p.R80H|LPO_uc010dcp.2_Missense_Mutation_p.R56H|LPO_uc010dcq.2_5'UTR	NM_006151	NP_006142	P22079	PERL_HUMAN	lactoperoxidase isoform 1 preproprotein	139					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|breast(1)	2						AGCCCTTACCGCACCATTACG	0.627													19	32					0	0	0.006122	0	0	
PPM1E	22843	broad.mit.edu	37	17	57058136	57058136	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:57058136G>A	uc002iwx.2	+	7	2139	c.2012G>A	c.(2011-2013)CGC>CAC	p.R671H	PPM1E_uc010ddd.2_Missense_Mutation_p.R434H	NM_014906	NP_055721	Q8WY54	PPM1E_HUMAN	protein phosphatase 1E	680					protein dephosphorylation	cytoplasm|nucleolus|protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity			breast(3)|lung(1)|skin(1)	5	Medulloblastoma(34;0.127)|all_neural(34;0.237)		BRCA - Breast invasive adenocarcinoma(1;5.76e-11)			TCTCATTTACGCCACCACTAC	0.428													56	171					0	0	0.003610	0	0	
CLTC	1213	broad.mit.edu	37	17	57725723	57725723	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:57725723G>A	uc002ixq.1	+	4	1085	c.642G>A	c.(640-642)ACG>ACA	p.T214T	CLTC_uc002ixp.2_Silent_p.T214T|CLTC_uc002ixr.1_Silent_p.T218T	NM_004859	NP_004850	Q00610	CLH1_HUMAN	clathrin heavy chain 1	214	Globular terminal domain.				axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|mitosis|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport|receptor internalization|transferrin transport	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|cytosol|melanosome|spindle	protein binding|structural molecule activity		CLTC/ALK(44)|CLTC/TFE3(2)	haematopoietic_and_lymphoid_tissue(33)|soft_tissue(11)|kidney(2)|ovary(1)|breast(1)	48	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					AAGAATCAACGTTATTTTGTT	0.398			T	ALK|TFE3	ALCL|renal 								43	99					0	0	0.003610	0	0	
CLTC	1213	broad.mit.edu	37	17	57743595	57743595	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:57743595G>A	uc002ixq.1	+	11	2219	c.1776G>A	c.(1774-1776)GCG>GCA	p.A592A	CLTC_uc002ixp.2_Silent_p.A592A|CLTC_uc002ixr.1_Silent_p.A596A	NM_004859	NP_004850	Q00610	CLH1_HUMAN	clathrin heavy chain 1	592	Heavy chain arm.|Distal segment.				axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|mitosis|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport|receptor internalization|transferrin transport	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|cytosol|melanosome|spindle	protein binding|structural molecule activity		CLTC/ALK(44)|CLTC/TFE3(2)	haematopoietic_and_lymphoid_tissue(33)|soft_tissue(11)|kidney(2)|ovary(1)|breast(1)	48	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					TTATGCATGCGCCTCAAGTAT	0.433			T	ALK|TFE3	ALCL|renal 								6	70					0	0	0.001984	0	0	
USP32	84669	broad.mit.edu	37	17	58365944	58365944	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:58365944T>C	uc002iyo.1	-	5	797	c.511A>G	c.(511-513)ACC>GCC	p.T171A	USP32_uc010wov.1_Missense_Mutation_p.T171A	NM_032582	NP_115971	Q8NFA0	UBP32_HUMAN	ubiquitin specific protease 32	171					protein deubiquitination|ubiquitin-dependent protein catabolic process	Golgi apparatus|membrane	calcium ion binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|breast(2)|large_intestine(1)	5	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;2.02e-11)|all cancers(12;5.23e-10)|Colorectal(3;0.198)			TCAGTGAGGGTAACATACACA	0.363													28	87					0	0	0.002096	0	0	
PPM1D	8493	broad.mit.edu	37	17	58740851	58740851	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:58740851G>A	uc002iyt.1	+	6	1978	c.1756G>A	c.(1756-1758)GGC>AGC	p.G586S	PPM1D_uc010ddm.1_RNA	NM_003620	NP_003611	O15297	PPM1D_HUMAN	protein phosphatase 1D	586					negative regulation of cell proliferation|protein dephosphorylation|response to radiation	nucleus|protein serine/threonine phosphatase complex	metal ion binding|protein binding|protein serine/threonine phosphatase activity			upper_aerodigestive_tract(1)	1	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;6.75e-12)|all cancers(12;1.96e-10)			CAGACTTAGGGGCCAGAAGAA	0.438											OREG0031485	type=REGULATORY REGION|TFbs=ESR1|Dataset=Estrogen Receptor Alpha Binding Sites|EvidenceSubtype=Chromatin immunoprecipitation with tag sequencing (ChIP-TS)	7	82					0	0	0.001984	0	0	
BCAS3	54828	broad.mit.edu	37	17	59155837	59155837	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:59155837G>A	uc002iyv.3	+	22	2428	c.2319G>A	c.(2317-2319)ACG>ACA	p.T773T	BCAS3_uc002iyu.3_Silent_p.T758T|BCAS3_uc002iyw.3_Silent_p.T754T|BCAS3_uc002iyy.3_Silent_p.T529T|BCAS3_uc002iyz.3_Silent_p.T327T|BCAS3_uc002iza.3_Silent_p.T312T	NM_001099432	NP_001092902	Q9H6U6	BCAS3_HUMAN	breast carcinoma amplified sequence 3 isoform 1	773						nucleus				ovary(2)|central_nervous_system(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(1;3.11e-12)|Epithelial(12;8.2e-07)|all cancers(12;5.33e-06)			CGAGTGACACGCCACAGCCTC	0.438													6	45					0	0	0.001984	0	0	
INTS2	57508	broad.mit.edu	37	17	59971251	59971251	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:59971251C>T	uc002izn.2	-	13	1673	c.1597G>A	c.(1597-1599)GCT>ACT	p.A533T	INTS2_uc002izm.2_Missense_Mutation_p.A525T	NM_020748	NP_065799	Q9H0H0	INT2_HUMAN	integrator complex subunit 2	533					snRNA processing	integral to membrane|integrator complex|nuclear membrane	protein binding			ovary(1)|lung(1)|pancreas(1)	3						ACTGCATGAGCTGTGACAACC	0.373													5	10					0	0	0.001984	0	0	
MED13	9969	broad.mit.edu	37	17	60087922	60087922	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:60087922T>C	uc002izo.2	-	9	2033	c.1956A>G	c.(1954-1956)ACA>ACG	p.T652T	MED13_uc002izp.2_Silent_p.T268T	NM_005121	NP_005112	Q9UHV7	MED13_HUMAN	mediator complex subunit 13	652					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			large_intestine(1)|ovary(1)	2						CTGTAACTGATGTTACACTTT	0.348													7	31					0	0	0.004482	0	0	
TBC1D3P2	440452	broad.mit.edu	37	17	60351479	60351479	+	Splice_Site	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:60351479T>C	uc002izq.2	-	2	112	c.0_splice	c.e2-1		TBC1D3P2_uc010woz.1_Splice_Site					SubName: Full=Putative uncharacterized protein TBC1D3E;												0						ACGTCCATCCTATGAGACAAA	0.537													10	271					0	0	0.002450	0	0	
TLK2	11011	broad.mit.edu	37	17	60673966	60673966	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:60673966G>A	uc010ddp.2	+	18	1815	c.1547G>A	c.(1546-1548)CGG>CAG	p.R516Q	TLK2_uc002izx.3_Missense_Mutation_p.R342Q|TLK2_uc002izz.3_Missense_Mutation_p.R494Q|TLK2_uc002jaa.3_Missense_Mutation_p.R462Q|TLK2_uc010wpd.1_Missense_Mutation_p.R462Q	NM_006852	NP_006843	Q86UE8	TLK2_HUMAN	tousled-like kinase 2 isoform A	516	Protein kinase.				cell cycle|chromatin modification|intracellular signal transduction|regulation of chromatin assembly or disassembly|response to DNA damage stimulus	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(1)|kidney(1)	2						AGGGAATACCGGATTCATAAA	0.378													28	126					0	0	0.002096	0	0	
MARCH10	162333	broad.mit.edu	37	17	60879031	60879031	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:60879031C>T	uc010ddr.2	-	2	304	c.66G>A	c.(64-66)CAG>CAA	p.Q22Q	MARCH10_uc002jag.3_Silent_p.Q22Q|MARCH10_uc010dds.2_Silent_p.Q22Q|MARCH10_uc002jah.2_Silent_p.Q22Q	NM_001100875	NP_001094345	Q8NA82	MARHA_HUMAN	ring finger protein 190	22							ligase activity|zinc ion binding				0						CCACCTTATGCTGCATGTCCC	0.443													23	89					0	0	0.003954	0	0	
ACE	1636	broad.mit.edu	37	17	61571353	61571353	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:61571353C>T	uc002jau.1	+	21	3229	c.3207C>T	c.(3205-3207)GTC>GTT	p.V1069V	ACE_uc002jav.1_Silent_p.V495V|ACE_uc010ddv.1_Silent_p.V296V|ACE_uc010wpj.1_Silent_p.V495V|ACE_uc002jaw.1_RNA|ACE_uc010wpk.1_Silent_p.V315V	NM_000789	NP_000780	P12821	ACE_HUMAN	angiotensin I converting enzyme 1 isoform 1	1069	Extracellular (Potential).|Peptidase M2 2.				arachidonic acid secretion|hormone catabolic process|kidney development|peptide catabolic process|regulation of smooth muscle cell migration	endosome|external side of plasma membrane|extracellular space|integral to membrane|membrane fraction|plasma membrane	actin binding|bradykinin receptor binding|carboxypeptidase activity|chloride ion binding|drug binding|metallopeptidase activity|peptidyl-dipeptidase activity|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4					Benazepril(DB00542)|Captopril(DB01197)|Deserpidine(DB01089)|Enalapril(DB00584)|Fosinopril(DB00492)|Lisinopril(DB00722)|Moexipril(DB00691)|Perindopril(DB00790)|Quinapril(DB00881)|Ramipril(DB00178)|Rescinnamine(DB01180)|Spirapril(DB01348)|Trandolapril(DB00519)	GCTACCTCGTCGATCAGTGGC	0.537													15	40					0	0	0.004007	0	0	
KCNH6	81033	broad.mit.edu	37	17	61611628	61611628	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:61611628G>A	uc002jay.2	+	5	1137	c.1057G>A	c.(1057-1059)GCC>ACC	p.A353T	KCNH6_uc002jax.1_Missense_Mutation_p.A353T|KCNH6_uc010wpl.1_Missense_Mutation_p.A230T|KCNH6_uc010wpm.1_Missense_Mutation_p.A353T|KCNH6_uc002jaz.1_Missense_Mutation_p.A353T	NM_030779	NP_110406	Q9H252	KCNH6_HUMAN	potassium voltage-gated channel, subfamily H,	353	Helical; Name=Segment S3; (Potential).				regulation of transcription, DNA-dependent|signal transduction					skin(1)	1					Ibutilide(DB00308)	CATGGTGGCCGCCATCCCTTT	0.622													20	39					0	0	0.001882	0	0	
DDX42	11325	broad.mit.edu	37	17	61895700	61895700	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:61895700C>T	uc002jbu.2	+	19	3016	c.2759C>T	c.(2758-2760)GCT>GTT	p.A920V	DDX42_uc002jbv.2_Missense_Mutation_p.A920V|DDX42_uc002jbx.2_Missense_Mutation_p.A656V|DDX42_uc002jby.2_Missense_Mutation_p.A466V|DDX42_uc010wps.1_Missense_Mutation_p.A288V	NM_007372	NP_031398	Q86XP3	DDX42_HUMAN	DEAD box polypeptide 42 protein	920					protein localization|regulation of anti-apoptosis	Cajal body|cytoplasm|nuclear speck	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			ovary(2)|skin(2)|large_intestine(1)	5						GATAAGACAGCTGACGGCTTT	0.473													23	58					0	0	0.004656	0	0	
SCN4A	6329	broad.mit.edu	37	17	62026054	62026054	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:62026054G>A	uc002jds.1	-	16	3138	c.3061C>T	c.(3061-3063)CGC>TGC	p.R1021C		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	1021					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	CAGGCCCTGCGCAGAGTCCAC	0.617													4	18					0	0	0.009096	0	0	
SMURF2	64750	broad.mit.edu	37	17	62574630	62574630	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:62574630C>T	uc002jep.1	-	9	1225	c.837G>A	c.(835-837)TGG>TGA	p.W279*	SMURF2_uc002jeq.1_Nonsense_Mutation_p.W38*|SMURF2_uc002jer.1_Nonsense_Mutation_p.W38*	NM_022739	NP_073576	Q9HAU4	SMUF2_HUMAN	SMAD specific E3 ubiquitin protein ligase 2	279	WW 2.			Missing: Abolishes interaction with SMAD2 and SMAD7.	BMP signaling pathway|negative regulation of transcription, DNA-dependent|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of transforming growth factor beta receptor signaling pathway|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent SMAD protein catabolic process	cytosol|membrane raft|nucleus|plasma membrane|ubiquitin ligase complex	identical protein binding|SMAD binding|ubiquitin-protein ligase activity			skin(3)|lung(1)	4	Breast(5;1.32e-14)		BRCA - Breast invasive adenocarcinoma(8;9.88e-12)			TTGGATCATGCCATGTGCTCA	0.368													5	56					0	0	0.001168	0	0	
RGS9	8787	broad.mit.edu	37	17	63221135	63221135	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:63221135G>T	uc002jfe.2	+	18	1533	c.1423G>T	c.(1423-1425)GCT>TCT	p.A475S	RGS9_uc010dem.2_Missense_Mutation_p.A472S|RGS9_uc002jfd.2_Missense_Mutation_p.A472S|RGS9_uc002jff.2_RNA|RGS9_uc002jfg.2_Missense_Mutation_p.A246S	NM_003835	NP_003826	O75916	RGS9_HUMAN	regulator of G-protein signaling 9 isoform 1	475					intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway|visual perception	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			ovary(2)|skin(2)	4						CCAGCACATGGCTCCCAGCCC	0.642													6	71					1.26484e-09	1.35768e-09	0.003080	1	0	
APOH	350	broad.mit.edu	37	17	64216750	64216750	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:64216750G>A	uc002jfn.3	-	5	585	c.526C>T	c.(526-528)CCA>TCA	p.P176S		NM_000042	NP_000033	P02749	APOH_HUMAN	apolipoprotein H precursor	176	Sushi 3.				blood coagulation, intrinsic pathway|negative regulation of angiogenesis|negative regulation of blood coagulation|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|negative regulation of fibrinolysis|negative regulation of myeloid cell apoptosis|negative regulation of smooth muscle cell apoptosis|plasminogen activation|positive regulation of lipoprotein lipase activity|triglyceride metabolic process|triglyceride transport	cell surface|chylomicron|high-density lipoprotein particle|very-low-density lipoprotein particle	eukaryotic cell surface binding|glycoprotein binding|heparin binding|lipoprotein lipase activator activity|phospholipid binding				0			BRCA - Breast invasive adenocarcinoma(6;9.74e-08)			GCATGTTGTGGCAAACATTCA	0.428													4	90					0	0	0.000602	0	0	
HELZ	9931	broad.mit.edu	37	17	65184657	65184657	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:65184657C>T	uc010wqk.1	-	12	1127	c.940G>A	c.(940-942)GCC>ACC	p.A314T	HELZ_uc002jfv.3_RNA|HELZ_uc002jfx.3_Missense_Mutation_p.A314T	NM_014877	NP_055692			helicase with zinc finger domain											ovary(1)|pancreas(1)	2	all_cancers(12;1.24e-11)|Breast(2;1.05e-17)|all_epithelial(3;3.87e-13)					CTATCTCCGGCAGATATTGCA	0.393													7	143					0	0	0.003080	0	0	
BPTF	2186	broad.mit.edu	37	17	65850239	65850239	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:65850239G>A	uc002jgf.2	+	2	858	c.797G>A	c.(796-798)CGC>CAC	p.R266H	BPTF_uc002jge.2_Missense_Mutation_p.R266H|BPTF_uc010wqm.1_Missense_Mutation_p.R266H	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	266	DDT.				brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			TCTCCTTTTCGCTTTGAGGAC	0.443													29	91					0	0	0.005443	0	0	
BPTF	2186	broad.mit.edu	37	17	65908478	65908478	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:65908478C>T	uc002jgf.2	+	11	4539	c.4478C>T	c.(4477-4479)GCT>GTT	p.A1493V	BPTF_uc002jge.2_Missense_Mutation_p.A1619V	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	1619					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			TCTTCAGATGCTGAAGGTAAC	0.433													26	70					0	0	0.003954	0	0	
BPTF	2186	broad.mit.edu	37	17	65916176	65916176	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:65916176G>T	uc002jgf.2	+	13	5535	c.5474G>T	c.(5473-5475)AGA>ATA	p.R1825I	BPTF_uc002jge.2_Missense_Mutation_p.R1951I	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	1951					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			ATTAAGAGGAGAGATGTTGGT	0.328													8	108					0.000274275	0.0002868	0.004482	1	0	
BPTF	2186	broad.mit.edu	37	17	65928049	65928049	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:65928049G>A	uc002jgf.2	+	18	6234	c.6173G>A	c.(6172-6174)CGC>CAC	p.R2058H	BPTF_uc002jge.2_Missense_Mutation_p.R2184H	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	2184					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			CCTCAGATTCGCCCTGGTATG	0.383													5	72					0	0	0.001984	0	0	
ARSG	22901	broad.mit.edu	37	17	66343311	66343311	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:66343311G>A	uc002jhc.2	+	4	1248	c.452G>A	c.(451-453)CGT>CAT	p.R151H	ARSG_uc002jhb.1_Translation_Start_Site	NM_014960	NP_055775	Q96EG1	ARSG_HUMAN	Arylsulfatase G precursor	151					sulfur compound metabolic process	endoplasmic reticulum|extracellular space|lysosome	arylsulfatase activity|metal ion binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(8;5.34e-07)|LUSC - Lung squamous cell carcinoma(166;0.24)			CCCAACTTCCGTGGTAAGAAT	0.463													4	64					0	0	0.001168	0	0	
WIPI1	55062	broad.mit.edu	37	17	66431771	66431771	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:66431771G>A	uc010dey.2	-	6	702	c.611C>T	c.(610-612)GCG>GTG	p.A204V	WIPI1_uc002jhd.3_RNA|WIPI1_uc010wqo.1_Missense_Mutation_p.A122V|WIPI1_uc002jhe.3_RNA	NM_017983	NP_060453	Q5MNZ9	WIPI1_HUMAN	WD repeat domain, phosphoinositide interacting	204	WD 1.				macroautophagy|vesicle targeting, trans-Golgi to endosome	autophagic vacuole membrane|clathrin-coated vesicle|cytosol|endosome membrane|PAS complex|pre-autophagosomal structure membrane|trans-Golgi network	androgen receptor binding|estrogen receptor binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding				0						TTTTTCAGACGCACTTGCTAG	0.517											OREG0024688	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	104					0	0	0.004482	0	0	
PRKAR1A	5573	broad.mit.edu	37	17	66511578	66511578	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:66511578G>A	uc002jhg.2	+	2	218	c.38G>A	c.(37-39)CGC>CAC	p.R13H	PRKAR1A_uc002jhh.2_Missense_Mutation_p.R13H|PRKAR1A_uc002jhi.2_Missense_Mutation_p.R13H|PRKAR1A_uc002jhj.2_Missense_Mutation_p.R13H|PRKAR1A_uc002jhk.2_5'UTR|PRKAR1A_uc002jhl.2_Missense_Mutation_p.R13H|PRKAR1A_uc002jhm.2_Missense_Mutation_p.R13H	NM_212471	NP_997636	P10644	KAP0_HUMAN	cAMP-dependent protein kinase, regulatory	13	Dimerization and phosphorylation.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|intracellular signal transduction|nerve growth factor receptor signaling pathway|regulation of insulin secretion|regulation of transcription from RNA polymerase II promoter|transmembrane transport|water transport	cAMP-dependent protein kinase complex|cytosol	cAMP binding|cAMP-dependent protein kinase regulator activity|protein binding			adrenal_gland(4)|lung(3)|thyroid(2)|soft_tissue(2)|breast(1)	12	Breast(10;1.64e-13)					GAGGAGGCACGCAGCCTTCGA	0.483			T|Mis|N|F|S	RET	papillary thyroid	myxoma|endocrine|papillary thyroid			Carney_Complex|Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial|Cardiac_Myxomas_Familial_Clustering_of				6	29					0	0	0.001168	0	0	
ABCA8	10351	broad.mit.edu	37	17	66864467	66864467	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:66864467C>T	uc002jhp.2	-	37	4801	c.4622G>A	c.(4621-4623)AGC>AAC	p.S1541N	ABCA8_uc002jhq.2_Missense_Mutation_p.S1581N|ABCA8_uc010wqq.1_Missense_Mutation_p.S1576N	NM_007168	NP_009099	O94911	ABCA8_HUMAN	ATP-binding cassette, sub-family A member 8	1541						integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3	Breast(10;4.56e-13)					CTGTGAGAGGCTGTACTCCTC	0.418													15	39					0	0	0.004007	0	0	
ABCA9	10350	broad.mit.edu	37	17	67016615	67016615	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:67016615G>A	uc002jhu.2	-	19	2657	c.2514C>T	c.(2512-2514)GGC>GGT	p.G838G	ABCA9_uc010dez.2_Silent_p.G838G	NM_080283	NP_525022	Q8IUA7	ABCA9_HUMAN	ATP-binding cassette, sub-family A, member 9	838					transport	integral to membrane	ATP binding|ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	Breast(10;1.47e-12)					AGAGCGCCACGCCACTGATTG	0.443													32	79					0	0	0.003755	0	0	
ABCA6	23460	broad.mit.edu	37	17	67096998	67096998	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:67096998C>T	uc002jhw.1	-	22	3127	c.2952G>A	c.(2950-2952)GGG>GGA	p.G984G		NM_080284	NP_525023	Q8N139	ABCA6_HUMAN	ATP-binding cassette, sub-family A, member 6	984					transport	integral to membrane	ATP binding|ATPase activity			upper_aerodigestive_tract(2)|large_intestine(2)|ovary(2)|skin(1)	7	Breast(10;5.65e-12)					TTTGAAGTAGCCCATTGCTGA	0.303													6	50					0	0	0.001984	0	0	
ABCA6	23460	broad.mit.edu	37	17	67102220	67102220	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:67102220G>A	uc002jhw.1	-	19	2697	c.2522C>T	c.(2521-2523)GCA>GTA	p.A841V	ABCA6_uc002jhx.1_Missense_Mutation_p.A294V	NM_080284	NP_525023	Q8N139	ABCA6_HUMAN	ATP-binding cassette, sub-family A, member 6	841					transport	integral to membrane	ATP binding|ATPase activity			upper_aerodigestive_tract(2)|large_intestine(2)|ovary(2)|skin(1)	7	Breast(10;5.65e-12)					ACGGAGCCGTGCCATGGCAAA	0.438													20	53					0	0	0.010504	0	0	
ABCA10	10349	broad.mit.edu	37	17	67212456	67212456	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:67212456A>G	uc010dfa.1	-	8	1453	c.574T>C	c.(574-576)TCC>CCC	p.S192P	ABCA10_uc010wqt.1_RNA|ABCA10_uc010dfb.1_5'Flank|ABCA10_uc010dfc.1_Missense_Mutation_p.S84P	NM_080282	NP_525021	Q8WWZ4	ABCAA_HUMAN	ATP-binding cassette, sub-family A, member 10	192	Helical; (Potential).				transport	integral to membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;6.95e-12)					ATAAAAATGGACATAATGAAG	0.373													44	117					0	0	0.002852	0	0	
ABCA5	23461	broad.mit.edu	37	17	67252377	67252377	+	Missense_Mutation	SNP	T	G	G	rs11544716		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:67252377T>G	uc002jif.2	-	28	4997	c.3779A>C	c.(3778-3780)GAC>GCC	p.D1260A	ABCA5_uc002jib.2_Missense_Mutation_p.D226A|ABCA5_uc002jic.2_Missense_Mutation_p.D483A|ABCA5_uc002jid.2_Missense_Mutation_p.D177A|ABCA5_uc002jie.2_RNA|ABCA5_uc002jig.2_Missense_Mutation_p.D1260A	NM_018672	NP_061142	Q8WWZ7	ABCA5_HUMAN	ATP-binding cassette, sub-family A , member 5	1260					cholesterol efflux|high-density lipoprotein particle remodeling|negative regulation of macrophage derived foam cell differentiation	Golgi membrane|integral to membrane|late endosome membrane|lysosomal membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;3.72e-11)					ATCCTCATTGTCTGGTGGTTC	0.333													39	108					0	0	0.002852	0	0	
KCNJ2	3759	broad.mit.edu	37	17	68172423	68172423	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:68172423C>T	uc010dfg.2	+	2	1644	c.1243C>T	c.(1243-1245)CCT>TCT	p.P415S	KCNJ2_uc002jir.2_Missense_Mutation_p.P415S	NM_000891	NP_000882	P63252	IRK2_HUMAN	potassium inwardly-rectifying channel J2	415	Cytoplasmic (By similarity).				synaptic transmission	integral to plasma membrane	inward rectifier potassium channel activity|protein binding				0	Breast(10;1.64e-08)					GGCAAGTGTACCTCTAGAGCC	0.512													6	161					0	0	0.001984	0	0	
COG1	9382	broad.mit.edu	37	17	71197469	71197469	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:71197469C>T	uc002jjg.2	+	7	1539	c.1503C>T	c.(1501-1503)AGC>AGT	p.S501S	COG1_uc002jjh.2_Silent_p.S501S|COG1_uc002jjf.1_Silent_p.S501S	NM_018714	NP_061184	Q8WTW3	COG1_HUMAN	component of oligomeric golgi complex 1	501					Golgi organization|intra-Golgi vesicle-mediated transport|protein transport	Golgi membrane|Golgi transport complex	protein binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(166;0.197)			TTGCCAGTAGCGGCCTCTCCA	0.532													26	53					0	0	0.004656	0	0	
BTBD17	388419	broad.mit.edu	37	17	72352858	72352858	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:72352858C>T	uc002jkn.2	-	3	1375	c.1375G>A	c.(1375-1377)GCC>ACC	p.A459T		NM_001080466	NP_001073935	A6NE02	BTBDH_HUMAN	BTB (POZ) domain containing 17 precursor	459						extracellular region					0						AGGTGCAGGGCGTTCTCAACC	0.647													4	21					0	0	0.009096	0	0	
NT5C	30833	broad.mit.edu	37	17	73126663	73126663	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:73126663T>C	uc002jmx.2	-	5	601	c.526A>G	c.(526-528)ACA>GCA	p.T176A	NT5C_uc002jmy.2_RNA	NM_014595	NP_055410	Q8TCD5	NT5C_HUMAN	5',3'-nucleotidase, cytosolic	176					purine base metabolic process|purine nucleotide catabolic process|pyrimidine base metabolic process|pyrimidine deoxyribonucleotide catabolic process|pyrimidine nucleoside catabolic process	cytosol|nucleus	5'-nucleotidase activity|metal ion binding|pyrimidine nucleotide binding				0	all_lung(278;0.14)|Lung NSC(278;0.168)		LUSC - Lung squamous cell carcinoma(166;0.162)|Lung(188;0.235)			CGTCTCCTTGTCGGGGGCAGG	0.632											OREG0024728	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	44					0	0	0.001984	0	0	
GGA3	23163	broad.mit.edu	37	17	73235918	73235918	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:73235918G>A	uc002jni.1	-	13	1544	c.1535C>T	c.(1534-1536)GCG>GTG	p.A512V	GGA3_uc002jnj.1_Missense_Mutation_p.A479V|GGA3_uc010wrw.1_Missense_Mutation_p.A390V|GGA3_uc002jnk.1_Missense_Mutation_p.A440V|GGA3_uc010wrx.1_Missense_Mutation_p.A390V|GGA3_uc010wry.1_Missense_Mutation_p.A440V	NM_138619	NP_619525	Q9NZ52	GGA3_HUMAN	ADP-ribosylation factor binding protein 3	512	Unstructured hinge.				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|endosome membrane|trans-Golgi network	ADP-ribosylation factor binding			ovary(1)|breast(1)	2			all cancers(21;2.39e-06)|Epithelial(20;2.38e-05)			GTGGTGCAGCGCGCTGTTGCC	0.602													7	21					0	0	0.003080	0	0	
GGA3	23163	broad.mit.edu	37	17	73236020	73236020	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:73236020C>T	uc002jni.1	-	13	1442	c.1433G>A	c.(1432-1434)AGT>AAT	p.S478N	GGA3_uc002jnj.1_Missense_Mutation_p.S445N|GGA3_uc010wrw.1_Missense_Mutation_p.S356N|GGA3_uc002jnk.1_Missense_Mutation_p.S406N|GGA3_uc010wrx.1_Missense_Mutation_p.S356N|GGA3_uc010wry.1_Missense_Mutation_p.S406N	NM_138619	NP_619525	Q9NZ52	GGA3_HUMAN	ADP-ribosylation factor binding protein 3	478	Unstructured hinge.				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|endosome membrane|trans-Golgi network	ADP-ribosylation factor binding			ovary(1)|breast(1)	2			all cancers(21;2.39e-06)|Epithelial(20;2.38e-05)			GGAGCCCGCACTGGGGGCAGG	0.657													3	1					0	0	0.009096	0	0	
LLGL2	3993	broad.mit.edu	37	17	73566553	73566553	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:73566553C>T	uc002joh.2	+	16	2153	c.1999C>T	c.(1999-2001)CGG>TGG	p.R667W	LLGL2_uc002joi.2_Missense_Mutation_p.R667W|LLGL2_uc010dgg.1_Missense_Mutation_p.R667W|LLGL2_uc002joj.2_Missense_Mutation_p.R656W|LLGL2_uc010wsd.1_Missense_Mutation_p.R294W	NM_001031803	NP_001026973	Q6P1M3	L2GL2_HUMAN	lethal giant larvae homolog 2 isoform c	667					cell cycle|cell division|exocytosis|regulation of establishment or maintenance of cell polarity	cytoplasm|intracellular membrane-bounded organelle	PDZ domain binding			ovary(2)	2	all_cancers(13;3.15e-09)|all_epithelial(9;5.78e-10)|Breast(9;5.8e-10)|all_lung(278;0.246)		all cancers(21;1.8e-07)|Epithelial(20;1.38e-06)|Lung(188;0.0696)|LUSC - Lung squamous cell carcinoma(166;0.112)			CAGCCGGAAGCGGCACCCGGC	0.706													3	3					0	0	0.004672	0	0	
EVPL	2125	broad.mit.edu	37	17	74005331	74005331	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:74005331G>A	uc002jqi.2	-	22	4183	c.3955C>T	c.(3955-3957)CGC>TGC	p.R1319C	EVPL_uc010wss.1_Missense_Mutation_p.R1341C|EVPL_uc010wst.1_Missense_Mutation_p.R789C	NM_001988	NP_001979	Q92817	EVPL_HUMAN	envoplakin	1319	Central fibrous rod domain.				keratinization|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural molecule activity			pancreas(2)|central_nervous_system(1)|skin(1)	4						TTCTCGTGGCGCACCACCTCC	0.701													11	96					0	0	0.001855	0	0	
QRICH2	84074	broad.mit.edu	37	17	74287572	74287572	+	Missense_Mutation	SNP	G	A	A	rs144710718	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:74287572G>A	uc002jrd.1	-	4	2918	c.2738C>T	c.(2737-2739)GCA>GTA	p.A913V	QRICH2_uc010wsz.1_Missense_Mutation_p.A839V|QRICH2_uc010dgw.1_Intron	NM_032134	NP_115510	Q9H0J4	QRIC2_HUMAN	glutamine rich 2	913							protein binding			ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)|skin(1)	5						GCCAGGTGATGCCACATGCTG	0.502													6	87					0	0	0.003080	0	0	
QRICH2	84074	broad.mit.edu	37	17	74289360	74289360	+	Missense_Mutation	SNP	C	T	T	rs144671527	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:74289360C>T	uc002jrd.1	-	4	1130	c.950G>A	c.(949-951)CGC>CAC	p.R317H	QRICH2_uc010wsz.1_Missense_Mutation_p.R243H|QRICH2_uc010dgw.1_Intron	NM_032134	NP_115510	Q9H0J4	QRIC2_HUMAN	glutamine rich 2	317							protein binding			ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)|skin(1)	5						TTCCATACTGCGTTGGTCTGT	0.493													10	93					0	0	0.006214	0	0	
CYGB	114757	broad.mit.edu	37	17	74527194	74527194	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:74527194C>T	uc002jru.1	-	3	564	c.406G>A	c.(406-408)GCC>ACC	p.A136T	CYGB_uc002jrv.1_Missense_Mutation_p.A71T|PRCD_uc002jrw.1_Intron	NM_134268	NP_599030	Q8WWM9	CYGB_HUMAN	cytoglobin	136	Globin.				response to oxidative stress	cytoplasm	heme binding|oxygen binding|oxygen transporter activity|peroxidase activity				0						AATTCCTCGGCGACCACCTCC	0.647													5	23					0	0	0.001984	0	0	
SOCS3	9021	broad.mit.edu	37	17	76354897	76354897	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:76354897G>A	uc002jvl.2	-	2	696	c.280C>T	c.(280-282)CGC>TGC	p.R94C		NM_003955	NP_003946	O14543	SOCS3_HUMAN	suppressor of cytokine signaling 3	94	SH2.			R->E: Greatly impaired binding to Y429/Y431 phosphorylated EPOR.	anti-apoptosis|interferon-gamma-mediated signaling pathway|JAK-STAT cascade|regulation of growth|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	cytosol	protein kinase inhibitor activity	p.R94L(1)		ovary(1)	1			BRCA - Breast invasive adenocarcinoma(99;0.000688)|OV - Ovarian serous cystadenocarcinoma(97;0.0554)			CACTGGATGCGCAGGTTCTTG	0.652													3	10					0	0	0.000602	0	0	
ENGASE	64772	broad.mit.edu	37	17	77082286	77082286	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:77082286G>A	uc002jwv.2	+	14	2095	c.2087G>A	c.(2086-2088)CGG>CAG	p.R696Q	ENGASE_uc002jww.2_Missense_Mutation_p.R401Q	NM_001042573	NP_001036038	Q8NFI3	ENASE_HUMAN	endo-beta-N-acetylglucosaminidase	696						cytosol	mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase activity			skin(1)	1						ACCCAGTACCGGATAGTGGAC	0.632													6	18					0	0	0.001984	0	0	
CCDC40	55036	broad.mit.edu	37	17	78013765	78013765	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:78013765C>T	uc010dht.2	+	3	275	c.248C>T	c.(247-249)GCT>GTT	p.A83V	CCDC40_uc010wub.1_Missense_Mutation_p.A83V	NM_017950	NP_060420	Q4G0X9	CCD40_HUMAN	coiled-coil domain containing 40	83					axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium|cytoplasm				ovary(3)	3	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.149)			gaagaggaggCTGTGTCCTAT	0.348													15	52					0	0	0.003163	0	0	
CCDC40	55036	broad.mit.edu	37	17	78055728	78055728	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:78055728C>T	uc010dht.2	+	12	1887	c.1860C>T	c.(1858-1860)GGC>GGT	p.G620G	CCDC40_uc002jxm.3_Silent_p.G403G|CCDC40_uc002jxn.3_Silent_p.G16G	NM_017950	NP_060420	Q4G0X9	CCD40_HUMAN	coiled-coil domain containing 40	620	Potential.				axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium|cytoplasm				ovary(3)	3	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.149)			CCATCCAGGGCGAGCTGGAGC	0.582													11	22					0	0	0.000978	0	0	
RNF213	57674	broad.mit.edu	37	17	78317021	78317021	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:78317021G>A	uc002jyh.1	+	2	521	c.298G>A	c.(298-300)GAC>AAC	p.D100N		NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			TCGACTGATCGACCCTCAGGT	0.507													11	53					0	0	0.001855	0	0	
RPTOR	57521	broad.mit.edu	37	17	78923244	78923244	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:78923244C>T	uc002jyt.1	+	28	4072	c.3267C>T	c.(3265-3267)GAC>GAT	p.D1089D	RPTOR_uc010wug.1_Silent_p.D931D|RPTOR_uc002jyu.1_Translation_Start_Site	NM_020761	NP_065812	Q8N122	RPTOR_HUMAN	raptor isoform 1	1089	WD 2.				cell cycle arrest|cell growth|cellular response to amino acid stimulus|cellular response to nutrient levels|insulin receptor signaling pathway|positive regulation of protein serine/threonine kinase activity|positive regulation of TOR signaling cascade|TOR signaling cascade	cytosol|lysosome|TORC1 complex	protein complex binding			lung(4)|urinary_tract(1)|ovary(1)	6						CCTCCCCAGACGATGGTGCCA	0.597													9	110					0	0	0.001855	0	0	
SLC25A10	1468	broad.mit.edu	37	17	79671731	79671731	+	Silent	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:79671731T>A	uc010wut.1	+	3	455	c.330T>A	c.(328-330)GCT>GCA	p.A110A	MRPL12_uc002kbh.1_Silent_p.A110A	NM_012140	NP_036272	Q9UBX3	DIC_HUMAN	solute carrier family 25 (mitochondrial carrier;	Error:Variant_position_missing_in_Q9UBX3_after_alignment					gluconeogenesis|mitochondrial transport	integral to membrane|mitochondrial inner membrane|nucleus	protein binding				0	all_neural(118;0.0878)|Ovarian(332;0.12)|all_lung(278;0.23)		BRCA - Breast invasive adenocarcinoma(99;0.0117)|OV - Ovarian serous cystadenocarcinoma(97;0.0955)		Succinic acid(DB00139)	CTGTCCCTGCTGCAGCAGCCC	0.587													17	22					0	0	0.004007	0	0	
FASN	2194	broad.mit.edu	37	17	80037254	80037254	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:80037254G>A	uc002kdu.2	-	42	7494	c.7377C>T	c.(7375-7377)GGC>GGT	p.G2459G	FASN_uc002kdv.1_RNA	NM_004104	NP_004095	P49327	FAS_HUMAN	fatty acid synthase	2459	Thioesterase (By similarity).				energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|pantothenate metabolic process|positive regulation of cellular metabolic process|triglyceride biosynthetic process	cytosol|Golgi apparatus|melanosome|plasma membrane	3-hydroxypalmitoyl-[acyl-carrier-protein] dehydratase activity|3-oxoacyl-[acyl-carrier-protein] reductase (NADPH) activity|3-oxoacyl-[acyl-carrier-protein] synthase activity|[acyl-carrier-protein] S-acetyltransferase activity|[acyl-carrier-protein] S-malonyltransferase activity|acyl carrier activity|cofactor binding|enoyl-[acyl-carrier-protein] reductase (NADPH, B-specific) activity|myristoyl-[acyl-carrier-protein] hydrolase activity|oleoyl-[acyl-carrier-protein] hydrolase activity|palmitoyl-[acyl-carrier-protein] hydrolase activity|phosphopantetheine binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		OV - Ovarian serous cystadenocarcinoma(97;0.0211)|BRCA - Breast invasive adenocarcinoma(99;0.0237)		Cerulenin(DB01034)|Orlistat(DB01083)|Pyrazinamide(DB00339)	TGTAGTCCGCGCCCAGGTCCT	0.662													6	20					0	0	0.001984	0	0	
FASN	2194	broad.mit.edu	37	17	80038074	80038074	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:80038074G>A	uc002kdu.2	-	41	7205	c.7088C>T	c.(7087-7089)GCT>GTT	p.A2363V	FASN_uc002kdv.1_RNA	NM_004104	NP_004095	P49327	FAS_HUMAN	fatty acid synthase	2363	Thioesterase (By similarity).			A -> P (in Ref. 9; AAB35516).	energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|pantothenate metabolic process|positive regulation of cellular metabolic process|triglyceride biosynthetic process	cytosol|Golgi apparatus|melanosome|plasma membrane	3-hydroxypalmitoyl-[acyl-carrier-protein] dehydratase activity|3-oxoacyl-[acyl-carrier-protein] reductase (NADPH) activity|3-oxoacyl-[acyl-carrier-protein] synthase activity|[acyl-carrier-protein] S-acetyltransferase activity|[acyl-carrier-protein] S-malonyltransferase activity|acyl carrier activity|cofactor binding|enoyl-[acyl-carrier-protein] reductase (NADPH, B-specific) activity|myristoyl-[acyl-carrier-protein] hydrolase activity|oleoyl-[acyl-carrier-protein] hydrolase activity|palmitoyl-[acyl-carrier-protein] hydrolase activity|phosphopantetheine binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		OV - Ovarian serous cystadenocarcinoma(97;0.0211)|BRCA - Breast invasive adenocarcinoma(99;0.0237)		Cerulenin(DB01034)|Orlistat(DB01083)|Pyrazinamide(DB00339)	CTCCGTCTCAGCCTCAGCCTC	0.627													9	45					0	0	0.001368	0	0	
FASN	2194	broad.mit.edu	37	17	80040218	80040218	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:80040218C>T	uc002kdu.2	-	35	6109	c.5992G>A	c.(5992-5994)GGC>AGC	p.G1998S	FASN_uc002kdv.1_5'Flank	NM_004104	NP_004095	P49327	FAS_HUMAN	fatty acid synthase	1998	Beta-ketoacyl reductase (By similarity).				energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|pantothenate metabolic process|positive regulation of cellular metabolic process|triglyceride biosynthetic process	cytosol|Golgi apparatus|melanosome|plasma membrane	3-hydroxypalmitoyl-[acyl-carrier-protein] dehydratase activity|3-oxoacyl-[acyl-carrier-protein] reductase (NADPH) activity|3-oxoacyl-[acyl-carrier-protein] synthase activity|[acyl-carrier-protein] S-acetyltransferase activity|[acyl-carrier-protein] S-malonyltransferase activity|acyl carrier activity|cofactor binding|enoyl-[acyl-carrier-protein] reductase (NADPH, B-specific) activity|myristoyl-[acyl-carrier-protein] hydrolase activity|oleoyl-[acyl-carrier-protein] hydrolase activity|palmitoyl-[acyl-carrier-protein] hydrolase activity|phosphopantetheine binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		OV - Ovarian serous cystadenocarcinoma(97;0.0211)|BRCA - Breast invasive adenocarcinoma(99;0.0237)		Cerulenin(DB01034)|Orlistat(DB01083)|Pyrazinamide(DB00339)	TTCAGGGTGCCGCTGTACTTG	0.637													3	22					0	0	0.009096	0	0	
NARF	26502	broad.mit.edu	37	17	80430461	80430461	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:80430461C>T	uc002kfg.3	+	5	547	c.407C>T	c.(406-408)ACG>ATG	p.T136M	NARF_uc002kff.3_Missense_Mutation_p.T77M|NARF_uc010wvo.1_Intron|NARF_uc010wvp.1_Intron|NARF_uc010dit.2_Missense_Mutation_p.T136M|NARF_uc002kfj.3_Missense_Mutation_p.T88M|NARF_uc002kfi.3_RNA|NARF_uc002kfh.3_Missense_Mutation_p.T136M|NARF_uc002kfk.2_RNA	NM_012336	NP_036468	Q9UHQ1	NARF_HUMAN	nuclear prelamin A recognition factor isoform a	136						lamin filament	lamin binding			skin(1)	1	Breast(20;0.00106)|all_neural(118;0.0804)		OV - Ovarian serous cystadenocarcinoma(97;0.0143)|BRCA - Breast invasive adenocarcinoma(99;0.0369)			GTATTTGATACGACGATAGCT	0.433													5	55					0	0	0.001984	0	0	
TBCD	6904	broad.mit.edu	37	17	80772782	80772782	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:80772782C>T	uc002kfz.2	+	13	1420	c.1290C>T	c.(1288-1290)GGC>GGT	p.G430G	TBCD_uc002kfx.1_Silent_p.G413G|TBCD_uc002kfy.1_Silent_p.G430G	NM_005993	NP_005984	Q9BTW9	TBCD_HUMAN	beta-tubulin cofactor D	430					'de novo' posttranslational protein folding|adherens junction assembly|negative regulation of cell-substrate adhesion|negative regulation of microtubule polymerization|post-chaperonin tubulin folding pathway|tight junction assembly	adherens junction|cytoplasm|lateral plasma membrane|microtubule|tight junction	beta-tubulin binding|chaperone binding|GTPase activator activity				0	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0266)|all_epithelial(8;0.0696)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.18)			GCAGGAGAGGCCTGTTGCTGC	0.632													4	15					0	0	0.009096	0	0	
ENOSF1	55556	broad.mit.edu	37	18	677835	677835	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:677835G>A	uc002kku.3	-	13	1031	c.956C>T	c.(955-957)GCG>GTG	p.A319V	ENOSF1_uc002kkt.3_Missense_Mutation_p.A237V|ENOSF1_uc010dke.2_RNA|ENOSF1_uc010dkf.2_Missense_Mutation_p.A326V|ENOSF1_uc002kkv.3_Missense_Mutation_p.A306V|ENOSF1_uc002kkw.3_Missense_Mutation_p.A138V|ENOSF1_uc002kkx.3_Missense_Mutation_p.A243V	NM_017512	NP_059982	Q7L5Y1	ENOF1_HUMAN	enolase superfamily 1 isoform rTS beta	319					cellular amino acid catabolic process	mitochondrion	isomerase activity|metal ion binding			ovary(1)	1						CAGGGCCTTCGCCTGTAGGAG	0.443													38	100					0	0	0.008740	0	0	
METTL4	64863	broad.mit.edu	37	18	2544238	2544238	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:2544238A>G	uc002klh.3	-	8	2009	c.1229T>C	c.(1228-1230)GTC>GCC	p.V410A	METTL4_uc010dkj.2_Intron	NM_022840	NP_073751	Q8N3J2	METL4_HUMAN	methyltransferase like 4	410					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		methyltransferase activity|nucleic acid binding			kidney(1)|skin(1)	2						GGGCACGCTGACAATTAATTT	0.323													4	66					0	0	0.000602	0	0	
SMCHD1	23347	broad.mit.edu	37	18	2724949	2724949	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:2724949C>T	uc002klm.3	+	21	2845	c.2656C>T	c.(2656-2658)CGA>TGA	p.R886*	SMCHD1_uc002klk.3_RNA|SMCHD1_uc002kll.3_RNA	NM_015295	NP_056110	A6NHR9	SMHD1_HUMAN	structural maintenance of chromosomes flexible	886					chromosome organization		ATP binding				0						TTGTGTAATTCGAGGTGTTAC	0.338													5	30					0	0	0.001168	0	0	
LPIN2	9663	broad.mit.edu	37	18	2924406	2924406	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:2924406T>C	uc002klo.2	-	15	2316	c.2077A>G	c.(2077-2079)ACA>GCA	p.T693A		NM_014646	NP_055461	Q92539	LPIN2_HUMAN	lipin 2	693	DXDXT motif.|C-LIP.				fatty acid metabolic process|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|triglyceride biosynthetic process	cytosol|endoplasmic reticulum membrane|nucleus	phosphatidate phosphatase activity|transcription coactivator activity			ovary(1)|skin(1)	2				READ - Rectum adenocarcinoma(2;0.0419)|Colorectal(6;0.156)		TTGGTTATTGTCCCATCAATA	0.517													6	106					0	0	0.001984	0	0	
MYL12B	103910	broad.mit.edu	37	18	3277382	3277382	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:3277382G>A	uc010dkl.2	+	3	475	c.316G>A	c.(316-318)GCC>ACC	p.A106T	MYL12B_uc002klt.3_Missense_Mutation_p.A84T|MYL12B_uc010wyv.1_Missense_Mutation_p.A106T	NM_001144944	NP_001138416	O14950	ML12B_HUMAN	myosin regulatory light chain MRCL2 isoform A	106	EF-hand 2.				axon guidance|muscle contraction	cytosol|myosin complex	calcium ion binding				0						CATCAGAAACGCCTTTGCTTG	0.438													49	92					0	0	0.003610	0	0	
ZFP161	7541	broad.mit.edu	37	18	5292149	5292149	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:5292149T>C	uc002kmq.2	-	4	219	c.58A>G	c.(58-60)ACT>GCT	p.T20A	ZFP161_uc002kmr.2_Missense_Mutation_p.T20A|ZFP161_uc010dkp.2_Missense_Mutation_p.T20A	NM_003409	NP_003400	O43829	ZF161_HUMAN	zinc finger protein 161 homolog	20					negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AGAAACAGAGTTTTATGATCA	0.308													17	71					0	0	0.004990	0	0	
EPB41L3	23136	broad.mit.edu	37	18	5407700	5407700	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:5407700C>A	uc002kmt.1	-	15	2243	c.2157G>T	c.(2155-2157)CAG>CAT	p.Q719H	EPB41L3_uc010wzh.1_Missense_Mutation_p.Q550H|EPB41L3_uc002kmu.1_Intron|EPB41L3_uc010dkq.1_Intron|EPB41L3_uc002kms.1_Intron|EPB41L3_uc010wze.1_Intron|EPB41L3_uc010wzf.1_Intron|EPB41L3_uc010wzg.1_Intron|EPB41L3_uc010dkr.2_Missense_Mutation_p.Q111H	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	719	Spectrin--actin-binding (Potential).				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						AATTTTCTACCTGTGCCTTGA	0.388													21	92					1.50039e-11	1.62084e-11	0.001882	1	0	
TMEM200C	645369	broad.mit.edu	37	18	5892007	5892007	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:5892007C>T	uc002kmx.1	-	1	97	c.56G>A	c.(55-57)CGC>CAC	p.R19H		NM_001080209	NP_001073678	A6NKL6	T200C_HUMAN	transmembrane protein 200C	19						integral to membrane					0						GCTTGGGGGGCGGAGTGGATC	0.602													9	20					0	0	0.004482	0	0	
LAMA1	284217	broad.mit.edu	37	18	6964747	6964747	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:6964747G>A	uc002knm.2	-	51	7345	c.7251C>T	c.(7249-7251)GGC>GGT	p.G2417G	LAMA1_uc002knl.2_5'UTR|LAMA1_uc010wzj.1_Silent_p.G1893G	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	2417	Laminin G-like 2.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CCGGAGTCTCGCCCTGCTTGG	0.453													10	81					0	0	0.006214	0	0	
LAMA1	284217	broad.mit.edu	37	18	7046313	7046313	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:7046313G>A	uc002knm.2	-	6	916	c.822C>T	c.(820-822)GGC>GGT	p.G274G	LAMA1_uc010wzj.1_5'UTR	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	274	Laminin EGF-like 1.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TACTAGCATGGCCATAGCAGA	0.323													56	76					0	0	0.003610	0	0	
PTPRM	5797	broad.mit.edu	37	18	8343455	8343455	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:8343455G>A	uc002knn.3	+	21	3455	c.2952G>A	c.(2950-2952)AGG>AGA	p.R984R	PTPRM_uc010dkv.2_Silent_p.R997R|PTPRM_uc010wzl.1_Silent_p.R771R	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	984	Tyrosine-protein phosphatase 1.|Cytoplasmic (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				ACTTCTGGAGGATGGTGTGGC	0.458													62	55					0	0	0.003610	0	0	
KIAA0802	23255	broad.mit.edu	37	18	8720396	8720396	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:8720396G>A	uc002knr.2	+	4	401	c.259G>A	c.(259-261)GCT>ACT	p.A87T	KIAA0802_uc002knq.2_Missense_Mutation_p.A87T	NM_015210	NP_056025	Q9Y4B5	CC165_HUMAN	hypothetical protein LOC23255	438	Potential.										0						GGAAAAGCGCGCTAAAGCTGA	0.473													10	108					0	0	0.000978	0	0	
TXNDC2	84203	broad.mit.edu	37	18	9886245	9886245	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:9886245G>A	uc002koi.3	+	1	523	c.74G>A	c.(73-75)GGC>GAC	p.G25D	TXNDC2_uc010wzq.1_Intron|TXNDC2_uc002koh.3_Intron	NM_001098529	NP_001091999	Q86VQ3	TXND2_HUMAN	thioredoxin domain-containing 2 isoform 2	25					cell differentiation|cell redox homeostasis|glycerol ether metabolic process|multicellular organismal development|spermatogenesis	cytoplasm	electron carrier activity|nutrient reservoir activity|protein disulfide oxidoreductase activity|thioredoxin-disulfide reductase activity			ovary(1)|pancreas(1)	2						ATGAGGCTGGGCACTCAGGAA	0.478													4	55					0	0	0.009096	0	0	
MPPE1	65258	broad.mit.edu	37	18	11884615	11884615	+	Silent	SNP	C	T	T	rs146567173		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:11884615C>T	uc002kqf.2	-	11	1661	c.1020G>A	c.(1018-1020)ACG>ACA	p.T340T	MPPE1_uc002kqn.2_Silent_p.T277T|MPPE1_uc002kqg.2_RNA|MPPE1_uc002kqh.2_RNA|MPPE1_uc002kqi.2_RNA|MPPE1_uc002kqj.2_Silent_p.T341T|MPPE1_uc002kqk.2_Silent_p.T318T|MPPE1_uc002kql.2_Silent_p.T341T|MPPE1_uc002kqm.2_Silent_p.T277T	NM_023075	NP_075563	Q53F39	MPPE1_HUMAN	metallophosphoesterase 1 precursor	340					ER to Golgi vesicle-mediated transport|GPI anchor biosynthetic process	cis-Golgi network|endoplasmic reticulum exit site|ER-Golgi intermediate compartment membrane|integral to membrane	GPI anchor binding|manganese ion binding|phosphoric diester hydrolase activity				0						AGTCTGTGGGCGTGATGCTAC	0.532													6	76					0	0	0.001984	0	0	
SPIRE1	56907	broad.mit.edu	37	18	12506556	12506556	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:12506556G>A	uc002kre.2	-	6	939	c.892C>T	c.(892-894)CCC>TCC	p.P298S	SPIRE1_uc002krc.2_RNA|SPIRE1_uc010wzw.1_Missense_Mutation_p.P178S|SPIRE1_uc010wzx.1_Missense_Mutation_p.P101S|SPIRE1_uc010wzy.1_Missense_Mutation_p.P298S	NM_001128626	NP_001122098	Q08AE8	SPIR1_HUMAN	spire homolog 1 isoform a	298						cytoskeleton|perinuclear region of cytoplasm	actin binding				0						TATTCAATGGGCAAAGGGTTG	0.448													6	258					0	0	0.003080	0	0	
PTPN2	5771	broad.mit.edu	37	18	12817195	12817195	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:12817195C>T	uc002krp.2	-	6	859	c.665G>A	c.(664-666)CGC>CAC	p.R222H	PTPN2_uc002krl.2_Missense_Mutation_p.R222H|PTPN2_uc002krn.2_Missense_Mutation_p.R245H|PTPN2_uc002kro.2_Missense_Mutation_p.R222H|PTPN2_uc002krm.2_Missense_Mutation_p.R222H	NM_002828	NP_002819	P17706	PTN2_HUMAN	protein tyrosine phosphatase, non-receptor type	222	Tyrosine-protein phosphatase.|Substrate binding (By similarity).				interferon-gamma-mediated signaling pathway|regulation of interferon-gamma-mediated signaling pathway	endoplasmic reticulum|nucleoplasm	protein binding			skin(2)	2		Lung NSC(161;8.94e-06)				GGTGCCAGAGCGCCCAATGCC	0.428													36	117					0	0	0.007835	0	0	
SEH1L	81929	broad.mit.edu	37	18	12955495	12955495	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:12955495G>A	uc002krr.2	+	3	334	c.196G>A	c.(196-198)GCC>ACC	p.A66T	SEH1L_uc002krq.2_Missense_Mutation_p.A66T	NM_031216	NP_112493	Q96EE3	SEH1_HUMAN	sec13-like protein isoform 2	66	WD 2.				attachment of spindle microtubules to kinetochore involved in mitotic sister chromatid segregation|carbohydrate metabolic process|cell division|glucose transport|mitotic metaphase plate congression|mitotic prometaphase|mRNA transport|nuclear pore organization|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex					0						TGTGACATGGGCCCATCCTGA	0.418													5	117					0	0	0.001168	0	0	
MC5R	4161	broad.mit.edu	37	18	13826231	13826231	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:13826231C>T	uc010xaf.1	+	1	467	c.467C>T	c.(466-468)GCG>GTG	p.A156V		NM_005913	NP_005904	P33032	MC5R_HUMAN	melanocortin 5 receptor	156	Helical; Name=4; (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|positive regulation of cAMP biosynthetic process	integral to plasma membrane	melanocortin receptor activity|protein binding			ovary(3)|lung(2)|breast(1)	6						ATCATGACGGCGAGGCGCTCA	0.577													8	145					0	0	0.003080	0	0	
ZNF519	162655	broad.mit.edu	37	18	14105249	14105249	+	Missense_Mutation	SNP	T	A	A	rs144389001	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:14105249T>A	uc002kst.1	-	3	1443	c.1290A>T	c.(1288-1290)AAA>AAT	p.K430N	ZNF519_uc002ksq.1_Intron|ZNF519_uc002ksr.1_Intron|ZNF519_uc010dlm.1_Intron	NM_145287	NP_660330	Q8TB69	ZN519_HUMAN	zinc finger protein 519	430					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ATTTGAAGTGTTTCTCTCCAG	0.408													4	102					0	0	0.001984	0	0	
ZNF519	162655	broad.mit.edu	37	18	14124358	14124358	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:14124358C>T	uc002kst.1	-	2	274	c.121G>A	c.(121-123)GTC>ATC	p.V41I	ZNF519_uc002ksq.1_RNA|ZNF519_uc002ksr.1_Intron|ZNF519_uc010dlm.1_RNA	NM_145287	NP_660330	Q8TB69	ZN519_HUMAN	zinc finger protein 519	41	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CCCAGGGAGACGAGGTTTCTG	0.413													14	90					0	0	0.004007	0	0	
CXADRP3	440224	broad.mit.edu	37	18	14479149	14479149	+	RNA	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:14479149G>A	uc010xai.1	-	3		c.415C>T				NR_024076				Homo sapiens cDNA clone IMAGE:30390722, containing frame-shift errors.												0						AATTTGCATGGCAGATAGGTA	0.468													9	47					0	0	0.001368	0	0	
ROCK1	6093	broad.mit.edu	37	18	18622132	18622132	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:18622132A>T	uc002kte.2	-	8	1826	c.885T>A	c.(883-885)AAT>AAA	p.N295K		NM_005406	NP_005397	Q13464	ROCK1_HUMAN	Rho-associated, coiled-coil containing protein	295	Protein kinase.				actin cytoskeleton organization|axon guidance|cellular component disassembly involved in apoptosis|cytokinesis|leukocyte tethering or rolling|membrane to membrane docking|Rho protein signal transduction	centriole|cytosol|Golgi membrane	ATP binding|identical protein binding|metal ion binding|protein serine/threonine kinase activity			lung(2)|breast(2)|central_nervous_system(1)	5	Melanoma(1;0.165)					AGGTAAGTGAATTTTTATGGT	0.299													8	85					0	0	0.003080	0	0	
SNRPD1	6632	broad.mit.edu	37	18	19209061	19209061	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:19209061C>T	uc002ktj.1	+	4	453	c.322C>T	c.(322-324)CGT>TGT	p.R108C		NM_006938	NP_008869	P62314	SMD1_HUMAN	small nuclear ribonucleoprotein D1 polypeptide	108	Arg/Lys-rich (basic).				ncRNA metabolic process|spliceosomal snRNP assembly|spliceosome assembly	catalytic step 2 spliceosome|cytosol|nucleoplasm|small nuclear ribonucleoprotein complex|U12-type spliceosomal complex	protein binding|RNA binding				0						aggaagaggacgtggccgtgg	0.264													5	105					0	0	0.001168	0	0	
NPC1	4864	broad.mit.edu	37	18	21140277	21140277	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:21140277C>T	uc002kum.3	-	6	1073	c.799G>A	c.(799-801)GCC>ACC	p.A267T	NPC1_uc010xaz.1_Missense_Mutation_p.A51T|NPC1_uc010xba.1_Missense_Mutation_p.A112T	NM_000271	NP_000262	O15118	NPC1_HUMAN	Niemann-Pick disease, type C1 precursor	267					autophagy|bile acid metabolic process|cholesterol efflux|cholesterol homeostasis|lysosomal transport	endoplasmic reticulum|integral to plasma membrane|late endosome membrane|lysosomal membrane|nuclear envelope|perinuclear region of cytoplasm	hedgehog receptor activity|protein binding|sterol transporter activity			ovary(2)	2	all_cancers(21;0.000106)|all_epithelial(16;6.57e-07)|Lung NSC(20;0.00166)|all_lung(20;0.00536)|Colorectal(14;0.0202)|Ovarian(20;0.127)					ACATACATGGCGTCCAAGCCA	0.517													52	45					0	0	0.003610	0	0	
HRH4	59340	broad.mit.edu	37	18	22048786	22048786	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:22048786G>A	uc002kvi.2	+	2	328	c.228G>A	c.(226-228)ACG>ACA	p.T76T	HRH4_uc010xbd.1_Intron|HRH4_uc010dlx.2_Intron	NM_021624	NP_067637	Q9H3N8	HRH4_HUMAN	histamine H4 receptor isoform 1	76	Extracellular (Potential).					integral to membrane|plasma membrane	histamine receptor activity			ovary(2)	2	all_cancers(21;0.000545)|all_epithelial(16;6.56e-06)|Lung NSC(20;0.0027)|all_lung(20;0.0085)|Colorectal(14;0.0361)|Ovarian(20;0.0991)				Clozapine(DB00363)	TCCCTCACACGCTGTTCGAAT	0.393													9	86					0	0	0.006214	0	0	
ZNF521	25925	broad.mit.edu	37	18	22932123	22932123	+	Translation_Start_Site	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:22932123C>A	uc002kvk.2	-	1	92	c.-155G>T	c.(-157--153)CAGGC>CATGC		ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Translation_Start_Site|ZNF521_uc002kvl.2_Translation_Start_Site	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521						cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein domain specific binding|zinc ion binding			ovary(4)|large_intestine(2)|lung(1)	7	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)					CATTGTCAGCCTGCCTGCACT	0.602			T	PAX5	ALL								6	76					1.06961e-07	1.14085e-07	0.003080	1	0	
CHST9	83539	broad.mit.edu	37	18	24497286	24497286	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:24497286A>G	uc002kwd.2	-	5	467	c.269T>C	c.(268-270)GTA>GCA	p.V90A	C18orf16_uc002kwb.2_Intron|C18orf16_uc010xbm.1_Intron|CHST9_uc002kwc.2_Missense_Mutation_p.V5A|CHST9_uc002kwe.2_Missense_Mutation_p.V90A	NM_031422	NP_113610	Q7L1S5	CHST9_HUMAN	GalNAc-4-sulfotransferase 2	90	Lumenal (Potential).				carbohydrate biosynthetic process|glycosaminoglycan metabolic process|hormone biosynthetic process|proteoglycan biosynthetic process|sulfur compound metabolic process	extracellular region|Golgi membrane|integral to membrane	N-acetylgalactosamine 4-O-sulfotransferase activity			ovary(2)|skin(1)	3	all_lung(6;0.0145)|Ovarian(20;0.124)					TTTTTCTCGTACATCCTCAGG	0.398													13	192					0	0	0.003163	0	0	
DSC2	1824	broad.mit.edu	37	18	28662238	28662238	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:28662238G>A	uc002kwl.3	-	9	1683	c.1229C>T	c.(1228-1230)GCC>GTC	p.A410V	DSC2_uc002kwk.3_Missense_Mutation_p.A410V	NM_024422	NP_077740	Q02487	DSC2_HUMAN	desmocollin 2 isoform Dsc2a preproprotein	410	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(10;0.0241)			ATTGGTTTTGGCATCTGTTAC	0.299													6	144					0	0	0.001984	0	0	
DSC2	1824	broad.mit.edu	37	18	28671070	28671070	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:28671070C>T	uc002kwl.3	-	4	849	c.395G>A	c.(394-396)CGC>CAC	p.R132H	DSC2_uc002kwk.3_Missense_Mutation_p.R132H	NM_024422	NP_077740	Q02487	DSC2_HUMAN	desmocollin 2 isoform Dsc2a preproprotein	132					homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(10;0.0241)			TCTCTTGGCGCGCCTTAGAAC	0.368													8	85					0	0	0.004482	0	0	
DSC1	1823	broad.mit.edu	37	18	28714691	28714691	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:28714691C>T	uc002kwn.2	-	12	1982	c.1720G>A	c.(1720-1722)GCA>ACA	p.A574T	DSC1_uc002kwm.2_Missense_Mutation_p.A574T	NM_024421	NP_077739	Q08554	DSC1_HUMAN	desmocollin 1 isoform Dsc1a preproprotein	574	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	desmosome|gap junction|integral to membrane|membrane fraction	calcium ion binding			ovary(3)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(10;0.00778)			ATTTGAGGTGCGTGATCGTTG	0.368													9	32					0	0	0.008291	0	0	
DSG3	1830	broad.mit.edu	37	18	29049154	29049154	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:29049154G>A	uc002kws.2	+	12	1848	c.1739G>A	c.(1738-1740)CGC>CAC	p.R580H		NM_001944	NP_001935	P32926	DSG3_HUMAN	desmoglein 3 preproprotein	580	Extracellular (Potential).				cellular component disassembly involved in apoptosis|homophilic cell adhesion	cytosol|desmosome|integral to membrane	calcium ion binding			skin(4)|ovary(3)|lung(1)|central_nervous_system(1)	9			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			GAGATGCCACGCAGCTTGACA	0.552													42	170					0	0	0.002852	0	0	
DSG2	1829	broad.mit.edu	37	18	29125953	29125953	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:29125953T>C	uc002kwu.3	+	15	2792	c.2604T>C	c.(2602-2604)CAT>CAC	p.H868H	uc002kwv.3_Intron	NM_001943	NP_001934	Q14126	DSG2_HUMAN	desmoglein 2 preproprotein	868	Cytoplasmic (Potential).				cellular component disassembly involved in apoptosis|homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			central_nervous_system(5)|ovary(2)|breast(1)|skin(1)	9			OV - Ovarian serous cystadenocarcinoma(10;0.0068)			CAGCTTCACATTCACTCTGTG	0.403													30	135					0	0	0.003755	0	0	
KIAA1012	22878	broad.mit.edu	37	18	29412060	29412060	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:29412060G>A	uc002kxc.3	-	28	4424	c.4060C>T	c.(4060-4062)CAT>TAT	p.H1354Y	KIAA1012_uc002kxb.3_Missense_Mutation_p.H1300Y|KIAA1012_uc002kxd.3_RNA	NM_014939	NP_055754	Q9Y2L5	TPPC8_HUMAN	hypothetical protein LOC22878	1354					ER to Golgi vesicle-mediated transport	cis-Golgi network					0						GTTGTTTTATGCCGAAGATCA	0.303													10	100					0	0	0.008291	0	0	
KLHL14	57565	broad.mit.edu	37	18	30321990	30321990	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:30321990G>A	uc002kxm.1	-	3	1358	c.970C>T	c.(970-972)CTG>TTG	p.L324L	KLHL14_uc010dmd.1_5'UTR	NM_020805	NP_065856	Q9P2G3	KLH14_HUMAN	kelch-like 14	324	Kelch 1.					cytosol|endoplasmic reticulum membrane				ovary(1)	1						ACCAATAACAGCATTTTCTTG	0.428													28	51					0	0	0.009535	0	0	
NOL4	8715	broad.mit.edu	37	18	31709979	31709979	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:31709979G>A	uc010dmi.2	-	2	499	c.270C>T	c.(268-270)GGC>GGT	p.G90G	NOL4_uc002kxr.3_5'UTR|NOL4_uc010xbt.1_Silent_p.G16G|NOL4_uc010dmh.2_Silent_p.G16G|NOL4_uc010xbu.1_Silent_p.G90G|NOL4_uc002kxt.3_Silent_p.G90G|NOL4_uc010xbw.1_5'UTR	NM_003787	NP_003778	O94818	NOL4_HUMAN	nucleolar protein 4	90						nucleolus	RNA binding			ovary(3)	3						CTACCCCTACGCCATCCTGGA	0.348													20	37					0	0	0.002780	0	0	
GALNT1	2589	broad.mit.edu	37	18	33263470	33263470	+	Silent	SNP	G	A	A	rs144666262		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:33263470G>A	uc010dmu.2	+	5	650	c.597G>A	c.(595-597)GTG>GTA	p.V199V	GALNT1_uc002kyz.3_Silent_p.V139V|GALNT1_uc002kzb.2_Silent_p.V199V	NM_020474	NP_065207	Q10472	GALT1_HUMAN	polypeptide N-acetylgalactosaminyltransferase 1	199	Lumenal (Potential).|Catalytic subdomain A.				protein O-linked glycosylation via serine|protein O-linked glycosylation via threonine	extracellular region|Golgi cisterna membrane|integral to membrane|perinuclear region of cytoplasm	manganese ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)	2						GAGCTGCTGTGTCTAAAGGCC	0.428													36	27					0	0	0.005524	0	0	
MOCOS	55034	broad.mit.edu	37	18	33785068	33785068	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:33785068C>A	uc002kzq.3	+	6	1070	c.1047C>A	c.(1045-1047)ACC>ACA	p.T349T		NM_017947	NP_060417	Q96EN8	MOCOS_HUMAN	molybdenum cofactor sulfurase	349					Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol	lyase activity|Mo-molybdopterin cofactor sulfurase activity|molybdenum ion binding|pyridoxal phosphate binding			skin(1)	1					Pyridoxal Phosphate(DB00114)	AGCAGCACACCTTCACCTTGG	0.438													17	64					8.04996e-18	8.80001e-18	0.001882	1	0	
MOCOS	55034	broad.mit.edu	37	18	33846728	33846728	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:33846728A>G	uc002kzq.3	+	14	2449	c.2426A>G	c.(2425-2427)CAC>CGC	p.H809R		NM_017947	NP_060417	Q96EN8	MOCOS_HUMAN	molybdenum cofactor sulfurase	809	MOSC.				Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol	lyase activity|Mo-molybdopterin cofactor sulfurase activity|molybdenum ion binding|pyridoxal phosphate binding			skin(1)	1					Pyridoxal Phosphate(DB00114)	GGGCCTTGTCACAGATGCCAG	0.483													10	37					0	0	0.008291	0	0	
FHOD3	80206	broad.mit.edu	37	18	34310720	34310720	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:34310720G>A	uc002kzt.1	+	16	3050	c.2953G>A	c.(2953-2955)GCC>ACC	p.A985T	FHOD3_uc002kzs.1_Missense_Mutation_p.A1002T|FHOD3_uc010dmz.1_Missense_Mutation_p.A717T|FHOD3_uc010dnb.1_5'UTR	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	985	FH2.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				GATTAAGATCGCCATTTTGAA	0.398													7	100					0	0	0.003080	0	0	
FHOD3	80206	broad.mit.edu	37	18	34349305	34349305	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:34349305C>T	uc002kzt.1	+	23	4199	c.4102C>T	c.(4102-4104)CGC>TGC	p.R1368C	FHOD3_uc002kzs.1_Missense_Mutation_p.R1385C|FHOD3_uc010dmz.1_Missense_Mutation_p.R1100C|FHOD3_uc010dnb.1_Silent_p.T305T	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	1368	DAD.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				GATCATGGACCGCATCGTCAA	0.522													41	46					0	0	0.002852	0	0	
KIAA1328	57536	broad.mit.edu	37	18	34752963	34752963	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:34752963C>T	uc002kzz.2	+	9	1464	c.1442C>T	c.(1441-1443)GCG>GTG	p.A481V	KIAA1328_uc002lab.2_Missense_Mutation_p.A233V|KIAA1328_uc002lac.1_Missense_Mutation_p.A340V|KIAA1328_uc010dnc.1_RNA	NM_020776	NP_065827	Q86T90	K1328_HUMAN	hypothetical protein LOC57536	481										central_nervous_system(1)	1				COAD - Colon adenocarcinoma(74;0.195)		AGAAAAGATGCGTCTACATCT	0.388													10	165					0	0	0.006214	0	0	
CELF4	56853	broad.mit.edu	37	18	34854311	34854311	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:34854311G>A	uc002lae.2	-	6	1160	c.764C>T	c.(763-765)GCC>GTC	p.A255V	CELF4_uc010dnd.1_Missense_Mutation_p.A254V|CELF4_uc002lag.2_Missense_Mutation_p.A245V|CELF4_uc002laf.2_Missense_Mutation_p.A250V|CELF4_uc002lai.2_Missense_Mutation_p.A240V|CELF4_uc002lah.1_5'Flank|CELF4_uc002laj.1_Silent_p.G90G	NM_020180	NP_064565	Q9BZC1	CELF4_HUMAN	bruno-like 4, RNA binding protein isoform 1	255	Sufficient for RNA-binding and MSE- dependent splicing activity.|Necessary for TNNT2 exon 5 inclusion.				embryo development|germ cell development|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	BRE binding|nucleotide binding|translation repressor activity, nucleic acid binding			ovary(2)	2						GAAAGGGATGGCCATGGGGTT	0.642													42	29					0	0	0.009718	0	0	
PIK3C3	5289	broad.mit.edu	37	18	39575890	39575890	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:39575890C>T	uc002lap.2	+	8	881	c.823C>T	c.(823-825)CGG>TGG	p.R275W	PIK3C3_uc010xcl.1_Missense_Mutation_p.R212W	NM_002647	NP_002638	Q8NEB9	PK3C3_HUMAN	catalytic phosphatidylinositol 3-kinase 3	275					cell cycle|cytokinesis|fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	midbody|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|protein binding			lung(8)|ovary(1)|breast(1)	10						CAAGCTTGCCCGGAGTTTAAG	0.333										TSP Lung(28;0.18)			10	67					0	0	0.001855	0	0	
SETBP1	26040	broad.mit.edu	37	18	42281686	42281686	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:42281686T>C	uc010dni.2	+	2	671	c.375T>C	c.(373-375)TGT>TGC	p.C125C	SETBP1_uc002lay.2_Silent_p.C125C	NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	125						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		ACTATATATGTCCACCTGAGA	0.468									Schinzel-Giedion_syndrome				6	201					0	0	0.001984	0	0	
SETBP1	26040	broad.mit.edu	37	18	42531132	42531132	+	Silent	SNP	C	T	T	rs140403091		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:42531132C>T	uc010dni.2	+	4	2123	c.1827C>T	c.(1825-1827)CCC>CCT	p.P609P		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	609						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		CCACCAGCCCCGTCAGTCCCA	0.532									Schinzel-Giedion_syndrome				26	43					0	0	0.006230	0	0	
SLC14A2	8170	broad.mit.edu	37	18	43204637	43204637	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:43204637A>G	uc010dnj.2	+	3	329	c.8A>G	c.(7-9)GAC>GGC	p.D3G	SLC14A2_uc002lbb.2_Missense_Mutation_p.D3G|SLC14A2_uc002lbe.2_Missense_Mutation_p.D3G	NM_007163	NP_009094	Q15849	UT2_HUMAN	solute carrier family 14 (urea transporter),	3						apical plasma membrane|integral to membrane|membrane fraction	protein binding|urea transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|skin(1)	4						GGAATGTCTGACCCCCACAGC	0.577													4	47					0	0	0.009096	0	0	
SLC14A1	6563	broad.mit.edu	37	18	43310355	43310355	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:43310355C>T	uc010xcn.1	+	4	389	c.70C>T	c.(70-72)CCA>TCA	p.P24S	SLC14A1_uc010dnk.2_Missense_Mutation_p.P80S|SLC14A1_uc002lbf.3_Missense_Mutation_p.P24S|SLC14A1_uc002lbg.3_RNA|SLC14A1_uc010xco.1_Intron|SLC14A1_uc002lbh.3_Intron|SLC14A1_uc002lbi.3_Intron|SLC14A1_uc002lbj.3_Missense_Mutation_p.P80S|SLC14A1_uc002lbk.3_Missense_Mutation_p.P24S	NM_001146036	NP_001139508	Q13336	UT1_HUMAN	solute carrier family 14 (urea transporter),	24						integral to plasma membrane	urea transmembrane transporter activity			central_nervous_system(1)|pancreas(1)	2						CCAGGTTTCGCCATGTCAAGG	0.498													5	77					0	0	0.000602	0	0	
KIAA1632	57724	broad.mit.edu	37	18	43481010	43481010	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:43481010C>T	uc002lbm.2	-	26	4697	c.4597G>A	c.(4597-4599)GCC>ACC	p.A1533T	KIAA1632_uc010xcq.1_Missense_Mutation_p.A87T|KIAA1632_uc010xcr.1_RNA|KIAA1632_uc010xcs.1_RNA|KIAA1632_uc002lbn.2_Missense_Mutation_p.A408T	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724	1533					autophagy						0						AGCTGGGTGGCGTCCTTCTGA	0.567													16	63					0	0	0.003163	0	0	
KATNAL2	83473	broad.mit.edu	37	18	44579417	44579417	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:44579417G>T	uc002lco.2	+	2	267	c.73G>T	c.(73-75)GCA>TCA	p.A25S	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lcp.3_Intron	NM_031303	NP_112593	Q8IYT4	KATL2_HUMAN	katanin p60 subunit A-like 2	97						cytoplasm|microtubule	ATP binding|microtubule-severing ATPase activity			ovary(1)|skin(1)|central_nervous_system(1)|pancreas(1)	4						ATCAGACACAGGTACATGCCT	0.348													7	143					2.0095e-06	2.12941e-06	0.001984	1	0	
ACAA2	10449	broad.mit.edu	37	18	47329200	47329200	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:47329200G>A	uc002ldw.3	-	2	437	c.40C>T	c.(40-42)CGA>TGA	p.R14*	ACAA2_uc002ldx.3_Nonsense_Mutation_p.R11*	NM_006111	NP_006102	P42765	THIM_HUMAN	acetyl-coenzyme A acyltransferase 2	14					anti-apoptosis|cholesterol biosynthetic process		acetyl-CoA C-acyltransferase activity|protein binding			ovary(1)	1						AAGGGCGTTCGCTTAGCAGCA	0.453													28	75					0	0	0.009535	0	0	
MYO5B	4645	broad.mit.edu	37	18	47566549	47566549	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:47566549G>A	uc002leb.2	-	3	562	c.274C>T	c.(274-276)CGT>TGT	p.R92C	MYO5B_uc002lec.1_Missense_Mutation_p.R91C	NM_001080467	NP_001073936	Q9ULV0	MYO5B_HUMAN	myosin VB	92	Myosin head-like.				protein transport	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(2)|central_nervous_system(1)	5				READ - Rectum adenocarcinoma(32;0.103)		TCCAGGAAACGGACCTTCAAA	0.478													48	255					0	0	0.003610	0	0	
ME2	4200	broad.mit.edu	37	18	48458685	48458685	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:48458685C>T	uc002ley.2	+	13	1628	c.1372C>T	c.(1372-1374)CGA>TGA	p.R458*	ME2_uc010dpd.2_Nonsense_Mutation_p.R458*	NM_002396	NP_002387	P23368	MAOM_HUMAN	malic enzyme 2, NAD(+)-dependent, mitochondrial	458					malate metabolic process	mitochondrial matrix	electron carrier activity|malate dehydrogenase (decarboxylating) activity|malate dehydrogenase (oxaloacetate-decarboxylating) activity|metal ion binding|NAD binding				0		Colorectal(6;0.0273)|all_epithelial(6;0.118)		Colorectal(21;0.0313)|READ - Rectum adenocarcinoma(32;0.105)|STAD - Stomach adenocarcinoma(97;0.184)	NADH(DB00157)	TACAGATGGGCGAGTCTTTAC	0.343													7	101					0	0	0.006214	0	0	
SMAD4	4089	broad.mit.edu	37	18	48593465	48593465	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:48593465G>A	uc010xdp.1	+	10	1754	c.1216G>A	c.(1216-1218)GCG>ACG	p.A406T	SMAD4_uc002lfb.3_Missense_Mutation_p.A251T	NM_005359	NP_005350	Q13485	SMAD4_HUMAN	mothers against decapentaplegic homolog 4	406	MH2.				BMP signaling pathway|negative regulation of cell growth|negative regulation of protein catabolic process|negative regulation of transcription, DNA-dependent|palate development|positive regulation of epithelial to mesenchymal transition|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|response to transforming growth factor beta stimulus|SMAD protein complex assembly|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	activin responsive factor complex|centrosome|cytosol	I-SMAD binding|protein homodimerization activity|R-SMAD binding|transcription regulatory region DNA binding|transforming growth factor beta receptor, common-partner cytoplasmic mediator activity	p.0?(35)|p.?(2)|p.A406T(1)		pancreas(170)|large_intestine(108)|thyroid(19)|lung(11)|small_intestine(9)|upper_aerodigestive_tract(8)|biliary_tract(8)|ovary(7)|breast(6)|stomach(5)|oesophagus(3)|testis(2)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|kidney(1)|urinary_tract(1)|vulva(1)|skin(1)|NS(1)	369		all_cancers(7;0.203)|Colorectal(6;0.003)|all_epithelial(6;0.00336)		Colorectal(16;0.0032)|COAD - Colon adenocarcinoma(17;0.0708)|READ - Rectum adenocarcinoma(32;0.155)		TAGTGACCACGCGGTCTTTGT	0.433									Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia				42	53					0	0	0.009718	0	0	
MEX3C	51320	broad.mit.edu	37	18	48702779	48702779	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:48702779G>A	uc002lfc.3	-	2	1922	c.1922C>T	c.(1921-1923)ACG>ATG	p.T641M		NM_016626	NP_057710	Q5U5Q3	MEX3C_HUMAN	ring finger and KH domain containing 2	641	RING-type.					cytoplasm|nucleus	RNA binding|zinc ion binding			lung(2)|ovary(1)|skin(1)	4		Colorectal(6;0.003)|all_epithelial(6;0.0473)		Colorectal(16;0.0175)|READ - Rectum adenocarcinoma(32;0.15)		ACATGATGGCGTTCTCTTTTC	0.403													6	184					0	0	0.001984	0	0	
DCC	1630	broad.mit.edu	37	18	50923715	50923715	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:50923715G>A	uc002lfe.1	+	18	3313	c.2726G>A	c.(2725-2727)GGC>GAC	p.G909D	DCC_uc010xdr.1_Missense_Mutation_p.G737D|DCC_uc010dpf.1_Missense_Mutation_p.G544D	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	909	Extracellular (Potential).|Fibronectin type-III 5.				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		ACAGCAACAGGCCTCAAACCA	0.388													32	140					0	0	0.006999	0	0	
MBD2	8932	broad.mit.edu	37	18	51691025	51691025	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:51691025G>A	uc002lfg.1	-	5	1206	c.977C>T	c.(976-978)GCC>GTC	p.A326V		NM_003927	NP_003918	Q9UBB5	MBD2_HUMAN	methyl-CpG binding domain protein 2 isoform 1	326					transcription, DNA-dependent		C2H2 zinc finger domain binding|methyl-CpG binding|satellite DNA binding				0				Colorectal(16;0.0212)|READ - Rectum adenocarcinoma(32;0.188)	Hexobarbital(DB01355)	CAAAGCACTGGCAACAGCAGA	0.483													6	75					0	0	0.001168	0	0	
C18orf26	284254	broad.mit.edu	37	18	52262274	52262274	+	Silent	SNP	C	T	T	rs139420428	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:52262274C>T	uc002lfq.1	+	2	286	c.240C>T	c.(238-240)TGC>TGT	p.C80C	C18orf26_uc002lfp.1_Intron	NM_173629	NP_775900	Q8N1N2	CR026_HUMAN	hypothetical protein LOC284254	80						integral to membrane					0				Colorectal(16;0.0193)|READ - Rectum adenocarcinoma(59;0.178)		CTGGGGTCTGCGTGAACCCAG	0.448													91	111					0	0	0.003610	0	0	
CCDC68	80323	broad.mit.edu	37	18	52609944	52609944	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:52609944A>G	uc002lfs.2	-	3	251	c.79T>C	c.(79-81)TCC>CCC	p.S27P	CCDC68_uc002lft.2_Missense_Mutation_p.S27P	NM_001143829	NP_001137301	Q9H2F9	CCD68_HUMAN	coiled-coil domain containing 68	27										skin(1)	1				Colorectal(16;0.0256)|READ - Rectum adenocarcinoma(59;0.21)		ATGTGAGCGGACGTAGACTCA	0.378													18	82					0	0	0.006122	0	0	
TCF4	6925	broad.mit.edu	37	18	52946880	52946880	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:52946880G>A	uc002lfz.2	-	9	1169	c.557C>T	c.(556-558)GCT>GTT	p.A186V	TCF4_uc002lfw.3_Missense_Mutation_p.A26V|TCF4_uc010xdu.1_Missense_Mutation_p.A56V|TCF4_uc010xdv.1_Missense_Mutation_p.A56V|TCF4_uc002lfx.2_Missense_Mutation_p.A115V|TCF4_uc010xdw.1_Missense_Mutation_p.A56V|TCF4_uc002lfy.2_Missense_Mutation_p.A144V|TCF4_uc010xdx.1_Missense_Mutation_p.A162V|TCF4_uc010dph.1_Missense_Mutation_p.A186V|TCF4_uc010xdy.1_Missense_Mutation_p.A162V|TCF4_uc002lga.2_Missense_Mutation_p.A288V|TCF4_uc002lgb.1_Missense_Mutation_p.A26V|TCF4_uc010dpi.2_Missense_Mutation_p.A192V|TCF4_uc002lgc.3_Missense_Mutation_p.A107V|TCF4_uc002lfv.2_5'UTR	NM_003199	NP_003190	P15884	ITF2_HUMAN	transcription factor 4 isoform b	186					positive regulation of neuron differentiation|protein-DNA complex assembly|transcription initiation from RNA polymerase II promoter	transcription factor complex	E-box binding|protein C-terminus binding|protein heterodimerization activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding RNA polymerase recruiting transcription factor activity|TFIIB-class binding transcription factor activity|TFIIB-class transcription factor binding			ovary(1)|lung(1)	2				Colorectal(16;0.00108)|READ - Rectum adenocarcinoma(59;0.0649)|COAD - Colon adenocarcinoma(17;0.0718)		TGCTGATGGAGCATAGACCTG	0.483													24	57					0	0	0.002780	0	0	
ST8SIA3	51046	broad.mit.edu	37	18	55020138	55020138	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:55020138G>A	uc002lgn.2	+	1	418	c.61G>A	c.(61-63)GCC>ACC	p.A21T		NM_015879	NP_056963	O43173	SIA8C_HUMAN	ST8 alpha-N-acetyl-neuraminide	21	Helical; Signal-anchor for type II membrane protein; (Potential).				glycosphingolipid biosynthetic process|N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			breast(1)|skin(1)	2				READ - Rectum adenocarcinoma(59;0.19)|Colorectal(16;0.205)		GCTCAGCGTCGCCCTGCTGAT	0.592													13	21					0	0	0.003163	0	0	
FECH	2235	broad.mit.edu	37	18	55218072	55218072	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:55218072C>T	uc002lgq.3	-	11	1261	c.1144G>A	c.(1144-1146)GCC>ACC	p.A382T	FECH_uc002lgp.3_Missense_Mutation_p.A388T|FECH_uc002lgr.3_Missense_Mutation_p.A240T	NM_000140	NP_000131	P22830	HEMH_HUMAN	ferrochelatase isoform b precursor	382					generation of precursor metabolites and energy|heme biosynthetic process|protoporphyrinogen IX metabolic process|response to light stimulus	mitochondrial inner membrane|mitochondrial matrix	2 iron, 2 sulfur cluster binding|ferrochelatase activity|ferrous iron binding|protein binding			central_nervous_system(1)	1		Colorectal(73;0.227)				ACCAAGTCGGCCAGGGCCTGG	0.582													8	60					0	0	0.006214	0	0	
ALPK2	115701	broad.mit.edu	37	18	56205101	56205101	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:56205101G>A	uc002lhj.3	-	5	2532	c.2318C>T	c.(2317-2319)GCT>GTT	p.A773V	ALPK2_uc002lhk.1_Missense_Mutation_p.A104V	NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	773							ATP binding|protein serine/threonine kinase activity			ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14						AACAGAGACAGCCACAGGCTC	0.537													26	66					0	0	0.005443	0	0	
MALT1	10892	broad.mit.edu	37	18	56412961	56412961	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:56412961G>A	uc002lhm.1	+	16	2233	c.1975G>A	c.(1975-1977)GTA>ATA	p.V659I	MALT1_uc002lhn.1_Missense_Mutation_p.V648I	NM_006785	NP_006776	Q9UDY8	MALT1_HUMAN	mucosa associated lymphoid tissue lymphoma	659					activation of NF-kappaB-inducing kinase activity|anti-apoptosis|nuclear export|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-2 production|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of protein ubiquitination|positive regulation of T cell cytokine production|protein oligomerization|proteolysis|T cell receptor signaling pathway	CBM complex|cytosol|nucleus|perinuclear region of cytoplasm	cysteine-type endopeptidase activity|protein self-association|signal transducer activity|ubiquitin-protein ligase activity			ovary(2)|lung(1)|central_nervous_system(1)	4						CAGCTACTTGGTATCAAAGGA	0.348			T	BIRC3	MALT								25	114					0	0	0.005443	0	0	
ZNF532	55205	broad.mit.edu	37	18	56587202	56587202	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:56587202G>A	uc002lho.2	+	4	2230	c.1683G>A	c.(1681-1683)TCG>TCA	p.S561S	ZNF532_uc002lhp.2_Silent_p.S559S|ZNF532_uc010xeg.1_Silent_p.S559S|ZNF532_uc002lhr.2_Silent_p.S559S|ZNF532_uc002lhs.2_Silent_p.S559S	NM_018181	NP_060651	Q9HCE3	ZN532_HUMAN	zinc finger protein 532	561					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)|skin(1)	2						CAGCAGCCTCGCAACCCCCCA	0.532													4	24					0	0	0.009096	0	0	
ZNF532	55205	broad.mit.edu	37	18	56587462	56587462	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:56587462A>T	uc002lho.2	+	4	2490	c.1943A>T	c.(1942-1944)CAT>CTT	p.H648L	ZNF532_uc002lhp.2_Missense_Mutation_p.H646L|ZNF532_uc010xeg.1_Missense_Mutation_p.H646L|ZNF532_uc002lhr.2_Missense_Mutation_p.H646L|ZNF532_uc002lhs.2_Missense_Mutation_p.H646L	NM_018181	NP_060651	Q9HCE3	ZN532_HUMAN	zinc finger protein 532	648					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)|skin(1)	2						ACGTGCAACCATTGTACAAAG	0.498													5	115					0	0	0.000602	0	0	
MC4R	4160	broad.mit.edu	37	18	58038852	58038852	+	Missense_Mutation	SNP	G	A	A	rs13447335		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:58038852G>A	uc002lie.1	-	1	1150	c.731C>T	c.(730-732)GCG>GTG	p.A244V		NM_005912	NP_005903	P32245	MC4R_HUMAN	melanocortin 4 receptor	244	Cytoplasmic (Potential).				feeding behavior|G-protein signaling, coupled to cAMP nucleotide second messenger|positive regulation of bone resorption|positive regulation of cAMP biosynthetic process	integral to membrane|plasma membrane	melanocyte-stimulating hormone receptor activity|neuropeptide binding|ubiquitin protein ligase binding			lung(1)	1		Colorectal(73;0.0946)				CAAGGTAATCGCTCCCTTCAT	0.498													42	49					0	0	0.003214	0	0	
CDH20	28316	broad.mit.edu	37	18	59195390	59195390	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:59195390C>T	uc010dps.1	+	6	1220	c.1208C>T	c.(1207-1209)GCG>GTG	p.A403V	CDH20_uc002lif.2_Missense_Mutation_p.A397V	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	403	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)				GAGGATGTGGCGATTGGAACA	0.473													54	211					0	0	0.003610	0	0	
CDH20	28316	broad.mit.edu	37	18	59221532	59221532	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:59221532C>T	uc010dps.1	+	11	2022	c.2010C>T	c.(2008-2010)GGC>GGT	p.G670G	CDH20_uc002lif.2_Silent_p.G664G	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	670	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)				ACGAGGGCGGCGGCGAGGAGG	0.652													19	64					0	0	0.002780	0	0	
TNFRSF11A	8792	broad.mit.edu	37	18	60036437	60036437	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:60036437C>T	uc002lin.2	+	9	1325	c.1287C>T	c.(1285-1287)GGC>GGT	p.G429G	TNFRSF11A_uc010dpv.2_Intron	NM_003839	NP_003830	Q9Y6Q6	TNR11_HUMAN	tumor necrosis factor receptor superfamily,	429	Cytoplasmic (Potential).				adaptive immune response|cell-cell signaling|circadian temperature homeostasis|monocyte chemotaxis|osteoclast differentiation|positive regulation of cell proliferation|positive regulation of ERK1 and ERK2 cascade via TNFSF11-mediated signaling|positive regulation of fever generation by positive regulation of prostaglandin secretion|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|response to interleukin-1|response to lipopolysaccharide	external side of plasma membrane|integral to membrane	metal ion binding|tumor necrosis factor receptor activity			breast(2)|lung(1)	3		Colorectal(73;0.188)				TGGACAGTGGCCATTGCCCGC	0.597									Paget_Disease_of_Bone				8	20					0	0	0.004482	0	0	
SERPINB2	5055	broad.mit.edu	37	18	61569049	61569049	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:61569049T>G	uc010xeu.1	+	7	944	c.611T>G	c.(610-612)TTC>TGC	p.F204C	SERPINB2_uc002ljo.2_Missense_Mutation_p.F204C|SERPINB2_uc010dqh.2_Missense_Mutation_p.F134C|SERPINB2_uc002ljp.1_Missense_Mutation_p.F9C|SERPINB2_uc002ljq.1_Missense_Mutation_p.F9C	NM_001143818	NP_001137290	P05120	PAI2_HUMAN	serine (or cysteine) proteinase inhibitor, clade	204					anti-apoptosis|blood coagulation|fibrinolysis|regulation of proteolysis	extracellular space|Golgi apparatus|plasma membrane	serine-type endopeptidase inhibitor activity			lung(1)|skin(1)	2		Esophageal squamous(42;0.131)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)|Urokinase(DB00013)	GCTGTCTACTTCAAAGGAAAG	0.383													27	110					0	0	0.009535	0	0	
CDH7	1005	broad.mit.edu	37	18	63477140	63477140	+	Silent	SNP	G	A	A	rs140174290		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:63477140G>A	uc002ljz.2	+	3	736	c.411G>A	c.(409-411)TCG>TCA	p.S137S	CDH7_uc002lka.2_Silent_p.S137S|CDH7_uc002lkb.2_Silent_p.S137S	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	137	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4		Esophageal squamous(42;0.129)				AGCCCGAGTCGGAGTTTGTCA	0.522													28	72					0	0	0.006320	0	0	
CCDC102B	79839	broad.mit.edu	37	18	66513554	66513554	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:66513554C>T	uc002lkk.2	+	6	1055	c.832C>T	c.(832-834)CGC>TGC	p.R278C	CCDC102B_uc002lki.2_Missense_Mutation_p.R278C|CCDC102B_uc002lkj.1_Missense_Mutation_p.R278C	NM_001093729	NP_001087198	Q68D86	C102B_HUMAN	coiled-coil domain containing 102B	278	Potential.									ovary(1)|lung(1)|skin(1)	3		Esophageal squamous(42;0.0559)|Colorectal(73;0.0604)				ATTTAGAATGCGCACAGCTTT	0.318													13	44					0	0	0.002450	0	0	
RTTN	25914	broad.mit.edu	37	18	67727254	67727254	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:67727254C>T	uc002lkp.2	-	36	4840	c.4772G>A	c.(4771-4773)CGG>CAG	p.R1591Q	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_Missense_Mutation_p.R679Q|RTTN_uc010dqp.2_5'UTR	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	1591							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				ATGAGGTGGCCGTGGTGATGT	0.383													12	58					0	0	0.001368	0	0	
RTTN	25914	broad.mit.edu	37	18	67860572	67860572	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:67860572C>T	uc002lkp.2	-	8	1027	c.959G>A	c.(958-960)GGC>GAC	p.G320D	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_5'UTR|RTTN_uc002lkq.1_Missense_Mutation_p.G320D	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	320							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				GGGTCGCTGGCCTGTGCGCCC	0.542													10	54					0	0	0.008291	0	0	
TSHZ1	10194	broad.mit.edu	37	18	72999217	72999217	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:72999217G>A	uc002lly.2	+	2	2283	c.1720G>A	c.(1720-1722)GCC>ACC	p.A574T		NM_005786	NP_005777	Q6ZSZ6	TSH1_HUMAN	teashirt family zinc finger 1	619						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Esophageal squamous(42;0.129)|Prostate(75;0.142)|Melanoma(33;0.211)		Colorectal(1;0.000501)|READ - Rectum adenocarcinoma(2;0.00226)|BRCA - Breast invasive adenocarcinoma(31;0.246)		CGAGCACAACGCCCTCCTGCA	0.672													7	14					0	0	0.003080	0	0	
TSHZ1	10194	broad.mit.edu	37	18	72999371	72999371	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:72999371C>T	uc002lly.2	+	2	2437	c.1874C>T	c.(1873-1875)GCG>GTG	p.A625V		NM_005786	NP_005777	Q6ZSZ6	TSH1_HUMAN	teashirt family zinc finger 1	670						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Esophageal squamous(42;0.129)|Prostate(75;0.142)|Melanoma(33;0.211)		Colorectal(1;0.000501)|READ - Rectum adenocarcinoma(2;0.00226)|BRCA - Breast invasive adenocarcinoma(31;0.246)		GCCAAGGCTGCGTCCCCCATA	0.562													6	63					0	0	0.001168	0	0	
TSHZ1	10194	broad.mit.edu	37	18	72999579	72999579	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:72999579G>A	uc002lly.2	+	2	2645	c.2082G>A	c.(2080-2082)GAG>GAA	p.E694E		NM_005786	NP_005777	Q6ZSZ6	TSH1_HUMAN	teashirt family zinc finger 1	739						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Esophageal squamous(42;0.129)|Prostate(75;0.142)|Melanoma(33;0.211)		Colorectal(1;0.000501)|READ - Rectum adenocarcinoma(2;0.00226)|BRCA - Breast invasive adenocarcinoma(31;0.246)		ACTCACCGGAGCCTTCCTTCA	0.592													11	44					0	0	0.001368	0	0	
TSHZ1	10194	broad.mit.edu	37	18	72999867	72999867	+	Silent	SNP	C	T	T	rs142726083		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:72999867C>T	uc002lly.2	+	2	2933	c.2370C>T	c.(2368-2370)AGC>AGT	p.S790S		NM_005786	NP_005777	Q6ZSZ6	TSH1_HUMAN	teashirt family zinc finger 1	835						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Esophageal squamous(42;0.129)|Prostate(75;0.142)|Melanoma(33;0.211)		Colorectal(1;0.000501)|READ - Rectum adenocarcinoma(2;0.00226)|BRCA - Breast invasive adenocarcinoma(31;0.246)		TGCGGGAGAGCGCACTCATGG	0.557													6	62					0	0	0.001984	0	0	
ZNF516	9658	broad.mit.edu	37	18	74154862	74154862	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:74154862G>A	uc010dqx.1	-	2	384	c.149C>T	c.(148-150)TCG>TTG	p.S50L	ZNF516_uc002lme.2_RNA	NM_014643	NP_055458	Q92618	ZN516_HUMAN	zinc finger protein 516	50	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(75;0.0869)|Esophageal squamous(42;0.129)		OV - Ovarian serous cystadenocarcinoma(15;7.64e-06)|BRCA - Breast invasive adenocarcinoma(31;0.238)		CATGTGCTGCGAAAGCGAGCT	0.642													16	33					0	0	0.006122	0	0	
ZNF236	7776	broad.mit.edu	37	18	74593430	74593430	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:74593430A>G	uc002lmi.2	+	9	1571	c.1373A>G	c.(1372-1374)GAA>GGA	p.E458G	ZNF236_uc002lmj.2_RNA|ZNF236_uc002lmk.1_Missense_Mutation_p.E458G	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	458					cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		GATAAAAAAGAAAAAAAAATG	0.383													38	79					0	0	0.009718	0	0	
ATP9B	374868	broad.mit.edu	37	18	77037168	77037168	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:77037168C>T	uc002lmx.2	+	13	1397	c.1383C>T	c.(1381-1383)CGC>CGT	p.R461R	ATP9B_uc002lmv.1_RNA|ATP9B_uc002lmw.1_Silent_p.R461R|ATP9B_uc002lmy.1_RNA|ATP9B_uc002lmz.1_Silent_p.R155R	NM_198531	NP_940933	O43861	ATP9B_HUMAN	ATPase, class II, type 9B	461	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)	3		Esophageal squamous(42;0.018)|Melanoma(33;0.0964)|Prostate(75;0.171)		OV - Ovarian serous cystadenocarcinoma(15;1.44e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0405)		AACTTGGGCGCCTGGTGTATT	0.438													5	91					0	0	0.001168	0	0	
ATP9B	374868	broad.mit.edu	37	18	77090061	77090061	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:77090061C>T	uc002lmx.2	+	17	1999	c.1985C>T	c.(1984-1986)GCC>GTC	p.A662V	ATP9B_uc002lmw.1_Missense_Mutation_p.A662V|ATP9B_uc002lmz.1_Missense_Mutation_p.A356V	NM_198531	NP_940933	O43861	ATP9B_HUMAN	ATPase, class II, type 9B	662	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)	3		Esophageal squamous(42;0.018)|Melanoma(33;0.0964)|Prostate(75;0.171)		OV - Ovarian serous cystadenocarcinoma(15;1.44e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0405)		GCTGACGTGGCCATGTCTCCT	0.468													14	58					0	0	0.006122	0	0	
ATP9B	374868	broad.mit.edu	37	18	77133950	77133950	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:77133950C>T	uc002lmx.2	+	28	3137	c.3123C>T	c.(3121-3123)CAC>CAT	p.H1041H	ATP9B_uc002lmw.1_Silent_p.H1041H|ATP9B_uc002lna.2_Silent_p.H67H|ATP9B_uc002lnb.1_3'UTR|ATP9B_uc010drb.2_RNA	NM_198531	NP_940933	O43861	ATP9B_HUMAN	ATPase, class II, type 9B	1041	Helical; (Potential).				ATP biosynthetic process	integral to membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)	3		Esophageal squamous(42;0.018)|Melanoma(33;0.0964)|Prostate(75;0.171)		OV - Ovarian serous cystadenocarcinoma(15;1.44e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0405)		AGTTCGTCCACGTGGTGGCCA	0.602													10	88					0	0	0.008291	0	0	
NFATC1	4772	broad.mit.edu	37	18	77246433	77246433	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:77246433G>A	uc010xfg.1	+	9	2731	c.2278G>A	c.(2278-2280)GCG>ACG	p.A760T	NFATC1_uc002lnd.2_Missense_Mutation_p.A760T|NFATC1_uc002lne.2_Missense_Mutation_p.A288T|NFATC1_uc010xfh.1_Intron|NFATC1_uc010xfj.1_Missense_Mutation_p.A288T|NFATC1_uc002lnf.2_Missense_Mutation_p.A747T|NFATC1_uc002lng.2_Missense_Mutation_p.A747T|NFATC1_uc010xfk.1_Intron	NM_006162	NP_006153	O95644	NFAC1_HUMAN	nuclear factor of activated T-cells, cytosolic	760	Trans-activation domain B (TAD-B).				intracellular signal transduction|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	FK506 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;3.73e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0257)		CCTGATGCCAGCGGCCCCTGG	0.687													12	50					0	0	0.001368	0	0	
CTDP1	9150	broad.mit.edu	37	18	77474877	77474877	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:77474877G>A	uc002lnh.1	+	8	1564	c.1417G>A	c.(1417-1419)GCC>ACC	p.A473T	CTDP1_uc002lni.1_Missense_Mutation_p.A473T|CTDP1_uc010drd.1_Missense_Mutation_p.A473T	NM_004715	NP_004706	Q9Y5B0	CTDP1_HUMAN	CTD (carboxy-terminal domain, RNA polymerase II,	473	Ser-rich.				positive regulation of viral transcription|protein dephosphorylation|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	CTD phosphatase activity|DNA-directed RNA polymerase activity				0		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;5.2e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0277)		CTCCTCCTCCGCCTCTGATGG	0.677													5	1					0	0	0.000602	0	0	
KCNG2	26251	broad.mit.edu	37	18	77659090	77659090	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:77659090C>T	uc010xfl.1	+	2	675	c.675C>T	c.(673-675)TGC>TGT	p.C225C		NM_012283	NP_036415	Q9UJ96	KCNG2_HUMAN	potassium voltage-gated channel, subfamily G,	225	Helical; Name=Segment S2; (Potential).				energy reserve metabolic process|regulation of heart contraction|regulation of insulin secretion	voltage-gated potassium channel complex	delayed rectifier potassium channel activity				0		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;6.92e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0244)		AGACCGTGTGCGTGGCCTGGT	0.682													6	17					0	0	0.001984	0	0	
PQLC1	80148	broad.mit.edu	37	18	77703340	77703340	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:77703340C>T	uc002lnl.2	-	3	498	c.326G>A	c.(325-327)CGC>CAC	p.R109H	PQLC1_uc010dre.2_Missense_Mutation_p.R26H|PQLC1_uc002lnk.2_Missense_Mutation_p.R109H|PQLC1_uc010xfm.1_Missense_Mutation_p.R109H	NM_025078	NP_079354	Q8N2U9	PQLC1_HUMAN	PQ loop repeat containing 1 isoform 1	109						integral to membrane				large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0212)|Melanoma(33;0.2)		OV - Ovarian serous cystadenocarcinoma(15;8.2e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0258)		TGTAAAGGAGCGGCGCCTGGC	0.582													17	93					0	0	0.002299	0	0	
ADNP2	22850	broad.mit.edu	37	18	77894583	77894583	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:77894583C>T	uc002lnw.2	+	4	1742	c.1287C>T	c.(1285-1287)GTC>GTT	p.V429V		NM_014913	NP_055728	Q6IQ32	ADNP2_HUMAN	ADNP homeobox 2	429					cellular response to oxidative stress|cellular response to retinoic acid|negative regulation of cell death|neuron differentiation|positive regulation of cell growth	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|breast(3)|central_nervous_system(1)	8		all_cancers(4;1.06e-15)|all_epithelial(4;2.36e-10)|all_lung(4;0.000302)|Lung NSC(4;0.000518)|Esophageal squamous(42;0.0212)|Ovarian(4;0.0256)|all_hematologic(56;0.15)|Melanoma(33;0.2)		Epithelial(2;1.1e-11)|OV - Ovarian serous cystadenocarcinoma(15;7.54e-09)|BRCA - Breast invasive adenocarcinoma(31;0.00247)|STAD - Stomach adenocarcinoma(84;0.164)		CCCCTGGGGTCCTGCAGGCTG	0.627													5	57					0	0	0.001168	0	0	
ADNP2	22850	broad.mit.edu	37	18	77896106	77896106	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:77896106G>A	uc002lnw.2	+	4	3265	c.2810G>A	c.(2809-2811)CGC>CAC	p.R937H		NM_014913	NP_055728	Q6IQ32	ADNP2_HUMAN	ADNP homeobox 2	937					cellular response to oxidative stress|cellular response to retinoic acid|negative regulation of cell death|neuron differentiation|positive regulation of cell growth	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|breast(3)|central_nervous_system(1)	8		all_cancers(4;1.06e-15)|all_epithelial(4;2.36e-10)|all_lung(4;0.000302)|Lung NSC(4;0.000518)|Esophageal squamous(42;0.0212)|Ovarian(4;0.0256)|all_hematologic(56;0.15)|Melanoma(33;0.2)		Epithelial(2;1.1e-11)|OV - Ovarian serous cystadenocarcinoma(15;7.54e-09)|BRCA - Breast invasive adenocarcinoma(31;0.00247)|STAD - Stomach adenocarcinoma(84;0.164)		CATTTGGTGCGCTGCAGAAGT	0.557													7	70					0	0	0.004482	0	0	
PPAP2C	8612	broad.mit.edu	37	19	282274	282274	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:282274G>A	uc002loi.2	-	5	676	c.577C>T	c.(577-579)CGG>TGG	p.R193W	PPAP2C_uc002loh.2_Missense_Mutation_p.R214W|PPAP2C_uc002loj.2_Missense_Mutation_p.R137W	NM_003712	NP_003703	O43688	LPP2_HUMAN	phosphatidic acid phosphatase type 2C isoform 1	193					sphingolipid metabolic process	integral to membrane|plasma membrane	phosphatidate phosphatase activity|phosphoprotein phosphatase activity|sphingosine-1-phosphate phosphatase activity			central_nervous_system(1)	1		all_cancers(10;1.13e-36)|all_epithelial(18;1.46e-23)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.1e-06)|all_lung(49;1.55e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CGCAGCAGCCGTGCCCACTTC	0.617													7	20					0	0	0.004482	0	0	
MIER2	54531	broad.mit.edu	37	19	312230	312230	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:312230C>T	uc002lok.1	-	9	859	c.850G>A	c.(850-852)GCC>ACC	p.A284T		NM_017550	NP_060020	Q8N344	MIER2_HUMAN	mesoderm induction early response 1, family	284	ELM2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0		all_cancers(10;1.05e-30)|all_epithelial(18;3.04e-19)|Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;2.49e-05)|all_lung(49;4.36e-05)|Breast(49;0.000304)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CTTCGCAGGGCCTCCTCCACA	0.622													8	21					0	0	0.004482	0	0	
C19orf21	126353	broad.mit.edu	37	19	757730	757730	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:757730C>T	uc002lpo.2	+	2	867	c.784C>T	c.(784-786)CGT>TGT	p.R262C		NM_173481	NP_775752	Q8IVT2	CS021_HUMAN	hypothetical protein LOC126353	262										upper_aerodigestive_tract(1)	1		Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;0.000145)|all_lung(49;0.000236)|Breast(49;0.0014)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GAACAAGGTGCGTGCTGTGCC	0.657													7	15					0	0	0.004482	0	0	
LPPR3	79948	broad.mit.edu	37	19	814918	814918	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:814918G>A	uc002lpx.1	-	5	631	c.567C>T	c.(565-567)TCC>TCT	p.S189S	LPPR3_uc010dru.1_Silent_p.S101S|LPPR3_uc002lpw.1_Silent_p.S189S|LPPR3_uc002lpy.1_5'UTR	NM_024888	NP_079164	Q6T4P5	LPPR3_HUMAN	plasticity-related protein 2	189						integral to membrane	phosphatidate phosphatase activity				0						TGTCGTGGCCGGAGCAGATGT	0.622													3	15					0	0	0.009096	0	0	
CFD	1675	broad.mit.edu	37	19	860951	860951	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:860951G>A	uc002lqc.2	+	3	328	c.303G>A	c.(301-303)GTG>GTA	p.V101V	CFD_uc010drv.2_Silent_p.V108V	NM_001928	NP_001919	P00746	CFAD_HUMAN	complement factor D preproprotein	101	Peptidase S1.				complement activation, alternative pathway|platelet activation|platelet degranulation|proteolysis	platelet alpha granule lumen	serine-type endopeptidase activity				0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;6.59e-06)|all_lung(49;9.97e-06)|Breast(49;0.000172)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TCCGCGCAGTGCCCCACCCGG	0.721													3	9					0	0	0.004672	0	0	
GRIN3B	116444	broad.mit.edu	37	19	1005443	1005443	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:1005443T>A	uc002lqo.1	+	3	1943	c.1943T>A	c.(1942-1944)CTC>CAC	p.L648H		NM_138690	NP_619635	O60391	NMD3B_HUMAN	glutamate receptor, ionotropic,	648	Cytoplasmic (Potential).				ionotropic glutamate receptor signaling pathway|protein insertion into membrane|regulation of calcium ion transport	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|ionotropic glutamate receptor activity|neurotransmitter receptor activity				0		Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;0.000226)|all_lung(49;0.000353)|Breast(49;0.00066)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)	Glycine(DB00145)|L-Glutamic Acid(DB00142)|Orphenadrine(DB01173)	CTCATGAACCTCTGGGCCATC	0.632													12	24					0	0	0.002450	0	0	
APC2	10297	broad.mit.edu	37	19	1460307	1460307	+	Silent	SNP	C	T	T	rs150932990		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:1460307C>T	uc002lsr.1	+	11	1639	c.1431C>T	c.(1429-1431)GAC>GAT	p.D477D	APC2_uc002lss.1_Silent_p.D59D|APC2_uc002lst.1_Silent_p.D477D|APC2_uc002lsu.1_Silent_p.D476D|uc002lsv.2_5'Flank	NM_005883	NP_005874	O95996	APC2_HUMAN	adenomatosis polyposis coli 2	477					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|Wnt receptor signaling pathway	actin filament|catenin complex|cytoplasmic microtubule|Golgi membrane|lamellipodium membrane|perinuclear region of cytoplasm	beta-catenin binding|microtubule binding			breast(3)|pancreas(1)	4		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCTTTGGGGACGTTGCCAACA	0.562													19	26					0	0	0.001882	0	0	
AP3D1	8943	broad.mit.edu	37	19	2114816	2114816	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:2114816G>A	uc002luz.2	-	21	2577	c.2354C>T	c.(2353-2355)GCT>GTT	p.A785V	AP3D1_uc002luy.2_Missense_Mutation_p.A694V|AP3D1_uc002lva.2_Missense_Mutation_p.A785V	NM_003938	NP_003929	O14617	AP3D1_HUMAN	adaptor-related protein complex 3, delta 1	785					eye pigment biosynthetic process|intracellular protein transport|regulation of sequestering of zinc ion|vesicle-mediated transport	endosome membrane|Golgi membrane|membrane coat	binding|protein transporter activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCTGGGCAGAGCATTCTGACA	0.592													10	51					0	0	0.008291	0	0	
DOT1L	84444	broad.mit.edu	37	19	2211140	2211140	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:2211140C>T	uc002lvb.3	+	15	1430	c.1394C>T	c.(1393-1395)CCG>CTG	p.P465L	DOT1L_uc002lvc.1_5'UTR	NM_032482	NP_115871	Q8TEK3	DOT1L_HUMAN	DOT1-like, histone H3 methyltransferase	465				RSPHSPFYQLPPSV -> TLRTPSGSPRRTKL (in Ref. 3).		nucleus	DNA binding|histone-lysine N-methyltransferase activity|protein binding			pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	4		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CAGCTACCTCCGAGCGTGCAG	0.701													6	43					0	0	0.001984	0	0	
ZNF554	115196	broad.mit.edu	37	19	2834253	2834253	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:2834253C>T	uc002lwm.2	+	5	1218	c.1020C>T	c.(1018-1020)AGC>AGT	p.S340S	ZNF554_uc002lwl.2_Silent_p.S289S	NM_001102651	NP_001096121	Q86TJ5	ZN554_HUMAN	zinc finger protein 554	340	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ATTCTTTGAGCGAACATCAAA	0.537													20	63					0	0	0.001882	0	0	
ZNF555	148254	broad.mit.edu	37	19	2852711	2852711	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:2852711T>A	uc002lwo.2	+	4	737	c.648T>A	c.(646-648)AAT>AAA	p.N216K	ZNF555_uc002lwn.3_Missense_Mutation_p.N215K	NM_152791	NP_690004	Q8NEP9	ZN555_HUMAN	zinc finger protein 555	216	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCTCCCTCAATCGGCATGTAA	0.433													19	66					0	0	0.008871	0	0	
ZNF555	148254	broad.mit.edu	37	19	2852932	2852932	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:2852932C>T	uc002lwo.2	+	4	958	c.869C>T	c.(868-870)GCG>GTG	p.A290V	ZNF555_uc002lwn.3_Missense_Mutation_p.A289V	NM_152791	NP_690004	Q8NEP9	ZN555_HUMAN	zinc finger protein 555	290	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AAGGAATGTGCGGAAGCCTTT	0.403													21	50					0	0	0.002780	0	0	
DOHH	83475	broad.mit.edu	37	19	3496805	3496805	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:3496805G>A	uc002lxs.2	-	2	171	c.8C>T	c.(7-9)ACG>ATG	p.T3M	DOHH_uc010xhl.1_Missense_Mutation_p.T3M	NM_031304	NP_112594	Q9BU89	DOHH_HUMAN	deoxyhypusine hydroxylase/monooxygenase	3					peptidyl-lysine modification to hypusine|post-translational protein modification	cytosol	deoxyhypusine monooxygenase activity|metal ion binding|protein binding				0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)		CTCCTGCTCCGTCACCATCGT	0.652													4	21					0	0	0.000602	0	0	
FZR1	51343	broad.mit.edu	37	19	3523019	3523019	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:3523019G>A	uc010dtk.2	+	1	66	c.32G>A	c.(31-33)CGC>CAC	p.R11H	FZR1_uc002lxt.2_Missense_Mutation_p.R11H|FZR1_uc002lxv.2_Missense_Mutation_p.R11H	NM_001136198	NP_001129670	Q9UM11	FZR_HUMAN	Fzr1 protein isoform 1	11					activation of anaphase-promoting complex activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|DNA repair|G2/M transition DNA damage checkpoint|mitosis|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of protein catabolic process|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|S phase of mitotic cell cycle	cytosol|nucleoplasm	protein binding			lung(1)|kidney(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)		CGCCTGCTTCGCCAGATCGTC	0.687													13	38					0	0	0.006122	0	0	
C19orf29	58509	broad.mit.edu	37	19	3624136	3624136	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:3624136C>T	uc002lyh.2	-	2	245	c.192G>A	c.(190-192)TGG>TGA	p.W64*	C19orf29_uc002lyi.3_Nonsense_Mutation_p.W64*|C19orf29_uc010dto.2_RNA	NM_001080543	NP_001074012	Q8WUQ7	CS029_HUMAN	chromosome 19 open reading frame 29	64						catalytic step 2 spliceosome	protein binding				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)		CTGAGCGCTGCCACCGCTCTT	0.542													9	36					0	0	0.000978	0	0	
ATCAY	85300	broad.mit.edu	37	19	3907775	3907775	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:3907775C>T	uc002lyy.3	+	5	832	c.402C>T	c.(400-402)AGC>AGT	p.S134S	ATCAY_uc010xhz.1_Silent_p.S140S|ATCAY_uc010dts.2_5'Flank	NM_033064	NP_149053	Q86WG3	ATCAY_HUMAN	caytaxin	134					transport		protein binding			breast(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00485)|STAD - Stomach adenocarcinoma(1328;0.183)		CCGGGGACAGCGCGGATCTAT	0.657													6	13					0	0	0.001168	0	0	
CHAF1A	10036	broad.mit.edu	37	19	4409428	4409428	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:4409428C>T	uc002mal.2	+	3	732	c.632C>T	c.(631-633)ACG>ATG	p.T211M		NM_005483	NP_005474	Q13111	CAF1A_HUMAN	chromatin assembly factor 1, subunit A (p150)	211	Binds to CBX1 chromo shadow domain.				cell cycle|DNA repair|DNA replication|DNA replication-dependent nucleosome assembly|protein complex assembly|regulation of transcription, DNA-dependent|transcription, DNA-dependent	CAF-1 complex|WINAC complex	chromatin binding|chromo shadow domain binding|unfolded protein binding			ovary(1)|skin(1)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0148)|STAD - Stomach adenocarcinoma(1328;0.18)		CCGGAGCTGACGAGTGGCCCG	0.597								Chromatin_Structure					9	24					0	0	0.004482	0	0	
FEM1A	55527	broad.mit.edu	37	19	4792951	4792951	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:4792951C>T	uc002mbf.2	+	1	1224	c.1085C>T	c.(1084-1086)GCG>GTG	p.A362V	uc002mbg.1_RNA	NM_018708	NP_061178	Q9BSK4	FEM1A_HUMAN	fem-1 homolog a	362					regulation of ubiquitin-protein ligase activity	cytoplasm	binding|ubiquitin-protein ligase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0139)		GAGCTGGAGGCGCTGATCACC	0.632													11	24					0	0	0.002450	0	0	
TICAM1	148022	broad.mit.edu	37	19	4816588	4816588	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:4816588G>A	uc002mbi.2	-	2	2053	c.1802C>T	c.(1801-1803)GCG>GTG	p.A601V		NM_182919	NP_891549	Q8IUC6	TCAM1_HUMAN	toll-like receptor adaptor molecule 1	601	Sufficient to induce apoptosis.				apoptosis|I-kappaB kinase/NF-kappaB cascade|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	protein kinase binding|signal transducer activity			breast(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0139)		CCCATAGGGCGCCCCAGTCCC	0.662													4	30					0	0	0.009096	0	0	
TICAM1	148022	broad.mit.edu	37	19	4818028	4818028	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:4818028G>A	uc002mbi.2	-	2	613	c.362C>T	c.(361-363)GCC>GTC	p.A121V		NM_182919	NP_891549	Q8IUC6	TCAM1_HUMAN	toll-like receptor adaptor molecule 1	121					apoptosis|I-kappaB kinase/NF-kappaB cascade|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	protein kinase binding|signal transducer activity			breast(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0139)		GGTGCGGACGGCTTCCTGGTA	0.677													6	16					0	0	0.003080	0	0	
KDM4B	23030	broad.mit.edu	37	19	5041189	5041189	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:5041189G>A	uc002mbq.3	+	5	585	c.359G>A	c.(358-360)CGC>CAC	p.R120H	KDM4B_uc010xil.1_Missense_Mutation_p.R120H|KDM4B_uc010xim.1_Missense_Mutation_p.R120H	NM_015015	NP_055830	O94953	KDM4B_HUMAN	jumonji domain containing 2B	120					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			lung(1)	1						GACCTTGAACGCAAATACTGG	0.552													7	64					0	0	0.003080	0	0	
PTPRS	5802	broad.mit.edu	37	19	5206828	5206828	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:5206828G>A	uc002mbv.2	-	38	6038	c.5804C>T	c.(5803-5805)GCG>GTG	p.A1935V	PTPRS_uc002mbu.1_Intron|PTPRS_uc010xin.1_Missense_Mutation_p.A1477V|PTPRS_uc002mbw.2_Missense_Mutation_p.A1897V|PTPRS_uc002mbx.2_Missense_Mutation_p.A1492V|PTPRS_uc002mby.2_Missense_Mutation_p.A1488V	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	1935	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		CTCCAGTGCCGCCTGGTAACA	0.622													17	59					0	0	0.002299	0	0	
PTPRS	5802	broad.mit.edu	37	19	5244179	5244179	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:5244179C>A	uc002mbv.2	-	11	1537	c.1303G>T	c.(1303-1305)GCC>TCC	p.A435S	PTPRS_uc002mbu.1_Missense_Mutation_p.A422S|PTPRS_uc010xin.1_Missense_Mutation_p.A422S|PTPRS_uc002mbw.2_Missense_Mutation_p.A422S|PTPRS_uc002mbx.2_Missense_Mutation_p.A426S|PTPRS_uc002mby.2_Missense_Mutation_p.A422S	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	435	Extracellular (Potential).|Fibronectin type-III 2.				cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		AGCATCCGGGCTTGCACGTTC	0.701													9	24					5.50884e-06	5.81984e-06	0.001368	1	0	
RFX2	5990	broad.mit.edu	37	19	6004294	6004294	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:6004294G>A	uc002meb.2	-	13	1687	c.1418C>T	c.(1417-1419)GCC>GTC	p.A473V	RFX2_uc002mec.2_Missense_Mutation_p.A448V	NM_000635	NP_000626	P48378	RFX2_HUMAN	regulatory factor X2 isoform a	473					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			breast(4)|ovary(1)|skin(1)	6						GTTACGGATGGCCTGTGTCAA	0.542													5	71					0	0	0.001984	0	0	
C3	718	broad.mit.edu	37	19	6711033	6711033	+	Missense_Mutation	SNP	C	T	T	rs149692538		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:6711033C>T	uc002mfm.2	-	12	1506	c.1444G>A	c.(1444-1446)GCC>ACC	p.A482T		NM_000064	NP_000055	P01024	CO3_HUMAN	complement component 3 precursor	482					complement activation, alternative pathway|complement activation, classical pathway|G-protein coupled receptor protein signaling pathway|inflammatory response|positive regulation vascular endothelial growth factor production	extracellular space	endopeptidase inhibitor activity|receptor binding			skin(3)|ovary(1)|pancreas(1)	5				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)		GCCTCGTGGGCGCGGTCCATT	0.607													26	77					0	0	0.005443	0	0	
ZNF557	79230	broad.mit.edu	37	19	7076449	7076449	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:7076449C>T	uc002mgb.2	+	5	642	c.157C>T	c.(157-159)CTG>TTG	p.L53L	ZNF557_uc002mga.2_Silent_p.L60L|ZNF557_uc002mgc.2_Silent_p.L60L	NM_001044388	NP_001037853	Q8N988	ZN557_HUMAN	zinc finger protein 557 isoform b	53	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2				Lung(535;0.179)		GTGGGCATTGCTGGACCCTGC	0.542													10	87					0	0	0.006214	0	0	
INSR	3643	broad.mit.edu	37	19	7141702	7141702	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:7141702G>A	uc002mgd.1	-	13	2777	c.2668C>T	c.(2668-2670)CGA>TGA	p.R890*	INSR_uc002mge.1_Nonsense_Mutation_p.R878*	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor	890	Fibronectin type-III 3.|Extracellular (Potential).				activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	TCACCATATCGCCGATAACTC	0.522													9	36					0	0	0.004482	0	0	
INSR	3643	broad.mit.edu	37	19	7170578	7170578	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:7170578C>T	uc002mgd.1	-	6	1562	c.1453G>A	c.(1453-1455)GCC>ACC	p.A485T	INSR_uc002mge.1_Missense_Mutation_p.A485T|INSR_uc002mgf.2_Missense_Mutation_p.A485T	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor	485					activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	GTCTTCAGGGCAATGTCGTTT	0.343													40	89					0	0	0.007835	0	0	
ARHGEF18	23370	broad.mit.edu	37	19	7509198	7509198	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:7509198G>A	uc002mgi.2	+	4	1158	c.905G>A	c.(904-906)CGC>CAC	p.R302H	ARHGEF18_uc010xjm.1_Missense_Mutation_p.R144H|ARHGEF18_uc002mgh.2_Missense_Mutation_p.R144H|ARHGEF18_uc002mgj.1_5'Flank	NM_001130955	NP_001124427	Q6ZSZ5	ARHGI_HUMAN	Rho/Rac guanine nucleotide exchange factor 18	302	DH.				actin cytoskeleton organization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of cell shape|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity			ovary(1)	1		Renal(5;0.0902)				GCCATTGGCCGCCTCTTCCCA	0.647													6	17					0	0	0.001984	0	0	
PNPLA6	10908	broad.mit.edu	37	19	7614956	7614956	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:7614956G>A	uc010xjq.1	+	16	1994	c.1799G>A	c.(1798-1800)CGC>CAC	p.R600H	PNPLA6_uc002mgq.1_Missense_Mutation_p.R552H|PNPLA6_uc010xjp.1_Missense_Mutation_p.R526H|PNPLA6_uc002mgr.1_Missense_Mutation_p.R552H|PNPLA6_uc002mgs.2_Missense_Mutation_p.R591H	NM_006702	NP_006693	Q8IY17	PLPL6_HUMAN	neuropathy target esterase isoform b	591	cNMP 2.|Cytoplasmic (Potential).				cell death|lipid catabolic process|phosphatidylcholine metabolic process	endoplasmic reticulum membrane|integral to membrane	lysophospholipase activity			ovary(3)	3						CGAGCCCAACGCGACTGCACC	0.632													12	67					0	0	0.001368	0	0	
XAB2	56949	broad.mit.edu	37	19	7687312	7687312	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:7687312C>T	uc002mgx.2	-	12	1548	c.1522G>A	c.(1522-1524)GAC>AAC	p.D508N		NM_020196	NP_064581	Q9HCS7	SYF1_HUMAN	XPA binding protein 2	508	HAT 10.				transcription, DNA-dependent|transcription-coupled nucleotide-excision repair	catalytic step 2 spliceosome|nucleoplasm	protein binding			central_nervous_system(2)|breast(1)|skin(1)	4						AGGATGCGGTCGTACACGGCC	0.607								Direct_reversal_of_damage|NER					25	82					0	0	0.003330	0	0	
STXBP2	6813	broad.mit.edu	37	19	7703933	7703933	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:7703933G>A	uc002mha.3	+	3	161	c.116G>A	c.(115-117)CGC>CAC	p.R39H	STXBP2_uc002mhb.3_Missense_Mutation_p.R39H|STXBP2_uc010dvj.2_RNA|STXBP2_uc010xjr.1_Missense_Mutation_p.R39H|STXBP2_uc010dvk.2_Missense_Mutation_p.R7H|STXBP2_uc002mhc.3_5'UTR|STXBP2_uc010dvl.1_5'Flank	NM_006949	NP_008880	Q15833	STXB2_HUMAN	syntaxin binding protein 2 isoform a	39					leukocyte mediated cytotoxicity|neutrophil degranulation|protein transport|regulation of mast cell degranulation|vesicle docking involved in exocytosis	azurophil granule|cytolytic granule|cytosol|specific granule|tertiary granule	syntaxin-3 binding			central_nervous_system(1)	1						CCAAGCATGCGCATCTTGTCT	0.577													5	35					0	0	0.001984	0	0	
CLEC4M	10332	broad.mit.edu	37	19	7831687	7831687	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:7831687G>T	uc002mih.2	+	6	979	c.861G>T	c.(859-861)GAG>GAT	p.E287D	CLEC4M_uc010xjv.1_3'UTR|CLEC4M_uc002mhy.2_3'UTR|CLEC4M_uc010xjw.1_Missense_Mutation_p.E243D|CLEC4M_uc010dvt.2_Missense_Mutation_p.E264D|CLEC4M_uc010dvs.2_Missense_Mutation_p.E286D|CLEC4M_uc010xjx.1_Missense_Mutation_p.E259D|CLEC4M_uc002mhz.2_Missense_Mutation_p.E218D|CLEC4M_uc002mic.2_Missense_Mutation_p.E282D|CLEC4M_uc002mia.2_Missense_Mutation_p.E174D	NM_001144910	NP_001138382	Q9H2X3	CLC4M_HUMAN	C-type lectin domain family 4, member M isoform	310	Extracellular (Probable).|C-type lectin.				cell-cell recognition|endocytosis|innate immune response|intracellular signal transduction|intracellular virion transport|leukocyte cell-cell adhesion|peptide antigen transport|viral genome replication|virion attachment to host cell surface receptor	cytoplasm|extracellular region|integral to plasma membrane	ICAM-3 receptor activity|mannose binding|metal ion binding|peptide antigen binding|virion binding			pancreas(1)	1						AAACTGCTGAGGAGCAGGTAC	0.592													8	36					0.000274275	0.0002868	0.004482	1	0	
LRRC8E	80131	broad.mit.edu	37	19	7965043	7965043	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:7965043G>A	uc002mir.2	+	3	1737	c.1636G>A	c.(1636-1638)GCC>ACC	p.A546T		NM_025061	NP_079337	Q6NSJ5	LRC8E_HUMAN	leucine rich repeat containing 8 family, member	546	LRR 2.					integral to membrane				lung(1)|pancreas(1)	2						CCGGAGCAACGCCGGGAAGGT	0.657													4	18					0	0	0.009096	0	0	
FBN3	84467	broad.mit.edu	37	19	8136980	8136980	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:8136980G>A	uc002mjf.2	-	62	8061	c.8040C>T	c.(8038-8040)GGC>GGT	p.G2680G	FBN3_uc002mje.2_Silent_p.G476G	NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	2680						proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						GAGGGGAGAGGCCATTGATCT	0.647													8	45					0	0	0.004482	0	0	
HNRNPM	4670	broad.mit.edu	37	19	8551958	8551958	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:8551958C>T	uc010dwe.2	+	15	2108	c.2028C>T	c.(2026-2028)TGC>TGT	p.C676C	HNRNPM_uc010dwd.2_Silent_p.C637C|HNRNPM_uc002mka.2_Silent_p.C541C|HNRNPM_uc002mkb.1_5'Flank	NM_005968	NP_005959	P52272	HNRPM_HUMAN	heterogeneous nuclear ribonucleoprotein M	676	RRM 3.				alternative nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|integral to plasma membrane|nuclear matrix|nucleolus|paraspeckles	nucleotide binding|protein domain specific binding|RNA binding				0						TCAACGAGTGCGGTAAGTGTT	0.522													38	94					0	0	0.008740	0	0	
MYO1F	4542	broad.mit.edu	37	19	8595407	8595407	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:8595407T>C	uc002mkg.2	-	20	2208	c.2094A>G	c.(2092-2094)CGA>CGG	p.R698R		NM_012335	NP_036467	O00160	MYO1F_HUMAN	myosin IF	698	IQ.					unconventional myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(1)	3						TCTGGATGGTTCGGGCAAAGC	0.667													26	58					0	0	0.008361	0	0	
MYO1F	4542	broad.mit.edu	37	19	8604860	8604860	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:8604860G>A	uc002mkg.2	-	16	1777	c.1663C>T	c.(1663-1665)CGC>TGC	p.R555C		NM_012335	NP_036467	O00160	MYO1F_HUMAN	myosin IF	555	Myosin head-like.					unconventional myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(1)	3						GTGCTGGGGCGCCCCTTCTTG	0.637													10	12					0	0	0.000978	0	0	
MYO1F	4542	broad.mit.edu	37	19	8618252	8618252	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:8618252G>A	uc002mkg.2	-	5	510	c.396C>T	c.(394-396)GGC>GGT	p.G132G	MYO1F_uc002mkh.2_Silent_p.G132G|MYO1F_uc010xkf.1_Silent_p.G132G	NM_012335	NP_036467	O00160	MYO1F_HUMAN	myosin IF	132	Myosin head-like.					unconventional myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(1)	3						TCTCGCCTCCGCCAGACACCT	0.547													6	72					0	0	0.001168	0	0	
ZNF558	148156	broad.mit.edu	37	19	8932718	8932718	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:8932718G>A	uc002mkn.1	-	2	311	c.81C>T	c.(79-81)GGC>GGT	p.G27G	ZNF558_uc010xkh.1_5'Flank|ZNF558_uc010dwg.1_Silent_p.G27G	NM_144693	NP_653294	Q96NG5	ZN558_HUMAN	zinc finger protein 558	27					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			central_nervous_system(1)	1						CCAGCTCTCCGCCCTGTGTGT	0.512													26	104					0	0	0.008361	0	0	
MUC16	94025	broad.mit.edu	37	19	9047264	9047264	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:9047264G>A	uc002mkp.2	-	5	34571	c.34367C>T	c.(34366-34368)GCA>GTA	p.A11456V		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	11458	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CATCTTTGATGCACCAGGGGA	0.498													28	86					0	0	0.007291	0	0	
MUC16	94025	broad.mit.edu	37	19	9067419	9067419	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:9067419G>A	uc002mkp.2	-	3	20231	c.20027C>T	c.(20026-20028)GCT>GTT	p.A6676V		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	6678	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTGAAGGACAGCACTTTTCTC	0.507													18	155					0	0	0.002299	0	0	
MUC16	94025	broad.mit.edu	37	19	9070156	9070156	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:9070156T>G	uc002mkp.2	-	3	17494	c.17290A>C	c.(17290-17292)ACT>CCT	p.T5764P		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5766	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						AAGGCAGGAGTTGATGTAGAA	0.458													47	111					0	0	0.003610	0	0	
MUC16	94025	broad.mit.edu	37	19	9070335	9070335	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:9070335G>T	uc002mkp.2	-	3	17315	c.17111C>A	c.(17110-17112)ACT>AAT	p.T5704N		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5706	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGTGTGCGCAGTGTCTTTGTA	0.502													19	54					5.03518e-11	5.43043e-11	0.007413	1	0	
MUC16	94025	broad.mit.edu	37	19	9075638	9075638	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:9075638C>T	uc002mkp.2	-	3	12012	c.11808G>A	c.(11806-11808)GAG>GAA	p.E3936E		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CTGTGGTGGACTCAGAAGGGG	0.478													5	28					0	0	0.000602	0	0	
OR7D2	162998	broad.mit.edu	37	19	9297198	9297198	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:9297198C>A	uc002mkz.1	+	1	929	c.741C>A	c.(739-741)GTC>GTA	p.V247V		NM_175883	NP_787079	Q96RA2	OR7D2_HUMAN	olfactory receptor, family 7, subfamily D,	247	Helical; Name=6; (Potential).				regulation of transcription, DNA-dependent|sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|upper_aerodigestive_tract(1)	3						ACCTCTCCGTCGTTTCTTTAT	0.473													22	70					1.55469e-16	1.69565e-16	0.003330	1	0	
ZNF560	147741	broad.mit.edu	37	19	9577561	9577561	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:9577561C>T	uc002mlp.1	-	10	2272	c.2062G>A	c.(2062-2064)GCA>ACA	p.A688T	ZNF560_uc010dwr.1_Missense_Mutation_p.A582T	NM_152476	NP_689689	Q96MR9	ZN560_HUMAN	zinc finger protein 560	688					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|pancreas(1)|liver(1)	6						TTTCCACATGCGTTACATTCA	0.373													35	100					0	0	0.004878	0	0	
FBXL12	54850	broad.mit.edu	37	19	9922250	9922250	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:9922250G>A	uc002mme.2	-	3	545	c.303C>T	c.(301-303)TGC>TGT	p.C101C	FBXL12_uc002mmd.2_Silent_p.C48C|FBXL12_uc002mmf.2_Silent_p.C48C|FBXL12_uc002mmg.2_Silent_p.C48C|FBXL12_uc002mmh.2_Silent_p.C48C	NM_017703	NP_060173	Q9NXK8	FXL12_HUMAN	F-box and leucine-rich repeat protein 12	101	LRR 2.						protein binding			lung(1)|kidney(1)	2						TCAGGTTGGGGCACTTCTGGC	0.662													15	35					0	0	0.003163	0	0	
COL5A3	50509	broad.mit.edu	37	19	10073525	10073525	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:10073525G>A	uc002mmq.1	-	65	4907	c.4821C>T	c.(4819-4821)GGC>GGT	p.G1607G		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	1607	Fibrillar collagen NC1.				collagen fibril organization|skin development	collagen type V	collagen binding|extracellular matrix structural constituent			ovary(7)|lung(1)|central_nervous_system(1)|skin(1)	10			Epithelial(33;7.11e-05)			TGCTATACCAGCCTCCAGGCT	0.547													4	18					0	0	0.009096	0	0	
ANGPTL6	83854	broad.mit.edu	37	19	10203294	10203294	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:10203294C>T	uc002mmx.1	-	6	1502	c.1384G>A	c.(1384-1386)GCC>ACC	p.A462T	C19orf66_uc002mmu.3_3'UTR|C19orf66_uc002mmv.3_3'UTR|C19orf66_uc002mmw.3_3'UTR|ANGPTL6_uc002mmy.1_Missense_Mutation_p.A462T	NM_031917	NP_114123	Q8NI99	ANGL6_HUMAN	angiopoietin-like 6 precursor	462	Fibrinogen C-terminal.				angiogenesis|cell differentiation|signal transduction	extracellular space	receptor binding				0			OV - Ovarian serous cystadenocarcinoma(20;3.58e-08)|Epithelial(33;2.5e-05)|all cancers(31;5.96e-05)			ATGAGCATGGCGGCCTTCCTG	0.597													12	61					0	0	0.001368	0	0	
DNMT1	1786	broad.mit.edu	37	19	10252856	10252856	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:10252856C>T	uc002mng.2	-	29	3289	c.3109G>A	c.(3109-3111)GCA>ACA	p.A1037T	DNMT1_uc002mne.2_5'Flank|DNMT1_uc002mnf.2_5'UTR|DNMT1_uc010xlc.1_Missense_Mutation_p.A1053T|DNMT1_uc002mnh.2_Missense_Mutation_p.A932T|DNMT1_uc010xld.1_Missense_Mutation_p.A1037T	NM_001379	NP_001370	P26358	DNMT1_HUMAN	DNA (cytosine-5-)-methyltransferase 1 isoform b	1037	BAH 2.				chromatin modification|maintenance of DNA methylation|negative regulation of histone H3-K9 methylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of gene expression|positive regulation of histone H3-K4 methylation|transcription, DNA-dependent	nucleus	DNA (cytosine-5-)-methyltransferase activity|DNA binding|transcription factor binding			ovary(2)|prostate(1)|lung(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(20;1.59e-09)|Epithelial(33;2.86e-06)|all cancers(31;6.68e-06)		Azacitidine(DB00928)|Decitabine(DB01262)|Flucytosine(DB01099)|Ifosfamide(DB01181)|Procainamide(DB01035)	TTGATGTCTGCGTGGTAGCTC	0.602													11	52					0	0	0.001855	0	0	
MRPL4	51073	broad.mit.edu	37	19	10367487	10367487	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:10367487C>T	uc002mnm.2	+	6	585	c.431C>T	c.(430-432)CCG>CTG	p.P144L	MRPL4_uc002mnn.2_Missense_Mutation_p.P144L|MRPL4_uc002mno.2_Missense_Mutation_p.P144L	NM_146387	NP_666499	Q9BYD3	RM04_HUMAN	mitochondrial ribosomal protein L4 isoform a	144					translation	mitochondrion|ribosome	structural constituent of ribosome			ovary(1)	1		Renal(1328;0.0112)	OV - Ovarian serous cystadenocarcinoma(20;1.39e-09)|Epithelial(33;1.99e-06)|all cancers(31;4.81e-06)	Lung(535;0.00705)		ATCCGCTCTCCGCTCTGGCGA	0.687													4	10					0	0	0.001984	0	0	
MRPL4	51073	broad.mit.edu	37	19	10370451	10370451	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:10370451G>A	uc002mnm.2	+	10	1052	c.898G>A	c.(898-900)GCT>ACT	p.A300T	MRPL4_uc002mnn.2_Missense_Mutation_p.A300T|MRPL4_uc002mno.2_3'UTR	NM_146387	NP_666499	Q9BYD3	RM04_HUMAN	mitochondrial ribosomal protein L4 isoform a	300					translation	mitochondrion|ribosome	structural constituent of ribosome			ovary(1)	1		Renal(1328;0.0112)	OV - Ovarian serous cystadenocarcinoma(20;1.39e-09)|Epithelial(33;1.99e-06)|all cancers(31;4.81e-06)	Lung(535;0.00705)		CCTACCCCACGCTACCCAGGG	0.662													15	14					0	0	0.004007	0	0	
TYK2	7297	broad.mit.edu	37	19	10476334	10476334	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:10476334G>T	uc002moc.3	-	7	1248	c.870C>A	c.(868-870)CCC>CCA	p.P290P	TYK2_uc010dxe.2_Silent_p.P105P|TYK2_uc002mod.2_Silent_p.P290P	NM_003331	NP_003322	P29597	TYK2_HUMAN	tyrosine kinase 2	290	FERM.				intracellular protein kinase cascade|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			lung(5)|large_intestine(2)|ovary(1)|breast(1)	9			OV - Ovarian serous cystadenocarcinoma(20;1.77e-09)|Epithelial(33;3.92e-06)|all cancers(31;8.95e-06)			GGATGTAGCAGGGCTCCCCCT	0.682													3	5					5.9392e-07	6.31025e-07	0.001168	1	0	
KEAP1	9817	broad.mit.edu	37	19	10610610	10610610	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:10610610C>T	uc002moq.1	-	2	256	c.100G>A	c.(100-102)GCC>ACC	p.A34T	KEAP1_uc002mor.1_Missense_Mutation_p.A34T	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	34					regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding			lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)			TCAGTGGAGGCGTACATCACC	0.647													13	41					0	0	0.003163	0	0	
ATG4D	84971	broad.mit.edu	37	19	10663693	10663693	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:10663693C>T	uc002mov.2	+	10	1495	c.1375C>T	c.(1375-1377)CGG>TGG	p.R459W	ATG4D_uc010xlh.1_Missense_Mutation_p.R396W|ATG4D_uc010dxh.2_RNA|ATG4D_uc010dxi.2_RNA|ATG4D_uc010dxj.2_Missense_Mutation_p.R126W	NM_032885	NP_116274	Q86TL0	ATG4D_HUMAN	APG4 autophagy 4 homolog D	459					autophagy|protein transport	cytoplasm	cysteine-type endopeptidase activity				0			Epithelial(33;9.2e-06)|all cancers(31;3.9e-05)			TCGCACAGGGCGGCTCCTCAG	0.567													5	18					0	0	0.001168	0	0	
CDKN2D	1032	broad.mit.edu	37	19	10678072	10678072	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:10678072C>T	uc002mpa.2	-	2	465	c.163G>A	c.(163-165)GCC>ACC	p.A55T	KRI1_uc002mox.1_5'Flank|KRI1_uc002moy.1_5'Flank|CDKN2D_uc002mpb.2_Missense_Mutation_p.A55T	NM_001800	NP_001791	P55273	CDN2D_HUMAN	cyclin-dependent kinase inhibitor 2D	55	ANK 1.				anti-apoptosis|autophagic cell death|cell cycle arrest|DNA synthesis involved in DNA repair|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|negative regulation of caspase activity|negative regulation of cell growth|negative regulation of cell proliferation|regulation of cyclin-dependent protein kinase activity|response to retinoic acid|response to UV|response to vitamin D	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|protein kinase binding				0			Epithelial(33;1.58e-05)|all cancers(31;6.36e-05)			AGGGCGATGGCGGTGCTGCCA	0.587									Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System				30	82					0	0	0.004289	0	0	
ILF3	3609	broad.mit.edu	37	19	10793873	10793873	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:10793873C>T	uc002mpn.2	+	14	1926	c.1609C>T	c.(1609-1611)CGT>TGT	p.R537C	ILF3_uc002mpm.2_Missense_Mutation_p.R541C|ILF3_uc002mpl.2_Missense_Mutation_p.R537C|ILF3_uc002mpk.2_Missense_Mutation_p.R537C|ILF3_uc010xli.1_Missense_Mutation_p.R135C|ILF3_uc002mpo.2_Missense_Mutation_p.R541C|ILF3_uc002mpp.2_Missense_Mutation_p.R362C|ILF3_uc002mpq.2_5'Flank	NM_012218	NP_036350	Q12906	ILF3_HUMAN	interleukin enhancer binding factor 3 isoform a	537	DRBM 2.				M phase|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleolus|ribonucleoprotein complex	DNA binding|double-stranded RNA binding|protein binding|protein binding			ovary(3)	3			Epithelial(33;6.86e-06)|all cancers(31;1.65e-05)			CGAGAAGAGGCGTGGGCTCAA	0.592													9	55					0	0	0.008291	0	0	
DNM2	1785	broad.mit.edu	37	19	10940929	10940929	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:10940929G>A	uc002mps.1	+	20	2582	c.2418G>A	c.(2416-2418)GCG>GCA	p.A806A	DNM2_uc010dxk.2_Intron|DNM2_uc002mpt.1_Silent_p.A806A|DNM2_uc002mpv.1_Silent_p.A802A|DNM2_uc002mpu.1_Silent_p.A802A|DNM2_uc010dxl.1_Silent_p.A806A|DNM2_uc002mpw.2_Silent_p.A535A|DNM2_uc002mpx.1_Silent_p.A162A	NM_001005361	NP_001005361	P50570	DYN2_HUMAN	dynamin 2 isoform 2	806	Pro-rich.				G2/M transition of mitotic cell cycle|positive regulation of apoptosis|positive regulation of transcription, DNA-dependent|post-Golgi vesicle-mediated transport|receptor internalization|signal transduction|synaptic vesicle transport|transferrin transport	cell junction|cytosol|Golgi membrane|microtubule|postsynaptic density|postsynaptic membrane	GTP binding|GTPase activity|microtubule binding			central_nervous_system(2)|skin(2)|ovary(1)|breast(1)	6			Epithelial(33;4.17e-05)|all cancers(31;8.48e-05)			CCTTCTCGGCGCCCCCAATCC	0.697													16	30					0	0	0.008871	0	0	
YIPF2	78992	broad.mit.edu	37	19	11034602	11034602	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:11034602C>T	uc002mqb.2	-	7	682	c.558G>A	c.(556-558)TGG>TGA	p.W186*	YIPF2_uc002mqc.2_Nonsense_Mutation_p.W186*	NM_024029	NP_076934	Q9BWQ6	YIPF2_HUMAN	Yip1 domain family, member 2	186	Cytoplasmic (Potential).					integral to membrane|transport vesicle					0						CACCCTTGCGCCACCGCAGGA	0.632													4	10					0	0	0.000602	0	0	
RGL3	57139	broad.mit.edu	37	19	11505125	11505125	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:11505125G>A	uc002mrp.2	-	19	2150	c.2086C>T	c.(2086-2088)CGG>TGG	p.R696W	RGL3_uc002mrn.2_Intron|RGL3_uc002mrm.2_Intron|RGL3_uc002mro.2_Missense_Mutation_p.R702W	NM_001035223	NP_001030300	Q3MIN7	RGL3_HUMAN	ral guanine nucleotide dissociation	696	Interaction with HRAS, MRAS and RIT1 (By similarity).|Ras-associating.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular				ovary(1)	1						TCTTTCCGCCGCAGCATGAAG	0.572													14	37					0	0	0.002450	0	0	
CNN1	1264	broad.mit.edu	37	19	11658702	11658702	+	Missense_Mutation	SNP	C	T	T	rs148076740		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:11658702C>T	uc002msc.1	+	5	645	c.481C>T	c.(481-483)CGG>TGG	p.R161W	CNN1_uc010xmb.1_Missense_Mutation_p.R111W|CNN1_uc010xmc.1_Missense_Mutation_p.R111W	NM_001299	NP_001290	P51911	CNN1_HUMAN	calponin 1, basic, smooth muscle	161					actomyosin structure organization|regulation of smooth muscle contraction	cytoskeleton	actin binding|calmodulin binding				0						AAGAGAAGGGCGGAACATCAT	0.577													12	24					0	0	0.002450	0	0	
ZNF440	126070	broad.mit.edu	37	19	11942881	11942881	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:11942881G>A	uc002msp.1	+	4	1046	c.890G>A	c.(889-891)CGT>CAT	p.R297H		NM_152357	NP_689570	Q8IYI8	ZN440_HUMAN	zinc finger protein 440	297	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ACGTGTCCCCGTTATGTTCGT	0.403													18	91					0	0	0.006122	0	0	
ZNF439	90594	broad.mit.edu	37	19	11978739	11978739	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:11978739T>C	uc002mss.2	+	3	983	c.855T>C	c.(853-855)TGT>TGC	p.C285C	ZNF439_uc002msr.2_Silent_p.C149C	NM_152262	NP_689475	Q8NDP4	ZN439_HUMAN	zinc finger protein 439	285	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						CCAGATCCTGTCACAGACATG	0.423													18	76					0	0	0.002780	0	0	
ZNF763	284390	broad.mit.edu	37	19	12089891	12089891	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:12089891A>G	uc002msw.2	+	4	1307	c.1152A>G	c.(1150-1152)ACA>ACG	p.T384T	ZNF763_uc010xmf.1_Silent_p.T404T|ZNF763_uc002msv.2_Silent_p.T387T|ZNF763_uc010xmg.1_Silent_p.T262T	NM_001012753	NP_001012771	Q0D2J5	ZN763_HUMAN	zinc finger protein 763	384					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1						TTTCAAACACACCTAAGAATG	0.393													10	111					0	0	0.006214	0	0	
ZNF791	163049	broad.mit.edu	37	19	12739704	12739704	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:12739704C>T	uc002mua.2	+	4	1523	c.1361C>T	c.(1360-1362)GCG>GTG	p.A454V	ZNF791_uc010xml.1_Missense_Mutation_p.A422V|ZNF791_uc010dyu.1_Missense_Mutation_p.A345V|ZNF791_uc010xmm.1_Missense_Mutation_p.A345V	NM_153358	NP_699189	Q3KP31	ZN791_HUMAN	zinc finger protein 791	454	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						TTTCCTAGTGCGTTACGAACA	0.398													7	86					0	0	0.004482	0	0	
MAN2B1	4125	broad.mit.edu	37	19	12776194	12776194	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:12776194C>A	uc002mub.2	-	3	484	c.408G>T	c.(406-408)CAG>CAT	p.Q136H	MAN2B1_uc010dyv.1_Missense_Mutation_p.Q136H|WDR83_uc002mue.3_5'Flank|WDR83_uc002muc.2_5'Flank	NM_000528	NP_000519	O00754	MA2B1_HUMAN	mannosidase, alpha, class 2B, member 1	136					protein deglycosylation	lysosome	alpha-mannosidase activity|zinc ion binding			ovary(4)|central_nervous_system(2)	6						GCACGACTTCCTGTGTGGCAT	0.567													5	124					0.000602214	0.000627828	0.000602	1	0	
TNPO2	30000	broad.mit.edu	37	19	12812201	12812201	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:12812201G>A	uc002muo.2	-	24	2838	c.2653C>T	c.(2653-2655)CCG>TCG	p.P885S	TNPO2_uc002mup.2_Missense_Mutation_p.P967S|TNPO2_uc002muq.2_Missense_Mutation_p.P875S|TNPO2_uc002mur.2_Missense_Mutation_p.P875S	NM_001136196	NP_001129668	O14787	TNPO2_HUMAN	transportin 2 (importin 3, karyopherin beta 2b)	885					intracellular protein transport	cytoplasm|nucleus	nuclear localization sequence binding|protein binding|protein transporter activity			ovary(1)	1						TTGAGCAGCGGCGGGAATTGC	0.577													19	12					0	0	0.003330	0	0	
TNPO2	30000	broad.mit.edu	37	19	12826457	12826457	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:12826457T>G	uc002muo.2	-	5	607	c.422A>C	c.(421-423)AAC>ACC	p.N141T	TNPO2_uc002mup.2_Missense_Mutation_p.N233T|TNPO2_uc002muq.2_Missense_Mutation_p.N141T|TNPO2_uc002mur.2_Missense_Mutation_p.N141T	NM_001136196	NP_001129668	O14787	TNPO2_HUMAN	transportin 2 (importin 3, karyopherin beta 2b)	141	HEAT 1.				intracellular protein transport	cytoplasm|nucleus	nuclear localization sequence binding|protein binding|protein transporter activity			ovary(1)	1						CTCACAAGTGTTGTAATCCTC	0.597													7	7					0	0	0.001984	0	0	
RNASEH2A	10535	broad.mit.edu	37	19	12924174	12924174	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:12924174T>C	uc002mvg.1	+	8	854	c.794T>C	c.(793-795)CTC>CCC	p.L265P	RNASEH2A_uc002mvf.1_Missense_Mutation_p.L183P	NM_006397	NP_006388	O75792	RNH2A_HUMAN	ribonuclease H2, large subunit	265					DNA replication|RNA catabolic process	nucleus|ribonuclease H2 complex	metal ion binding|ribonuclease H activity|RNA binding			breast(2)|central_nervous_system(1)	3						CAGGAGGGACTCAGGAAGATC	0.577													11	35					0	0	0.002450	0	0	
LPHN1	22859	broad.mit.edu	37	19	14266322	14266322	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:14266322G>A	uc010xnn.1	-	19	3454	c.3158C>T	c.(3157-3159)GCC>GTC	p.A1053V	LPHN1_uc010xno.1_Missense_Mutation_p.A1048V|uc002myf.2_Intron	NM_001008701	NP_001008701	O94910	LPHN1_HUMAN	latrophilin 1 isoform 1 precursor	1053	Helical; Name=6; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			ovary(2)|lung(2)|central_nervous_system(1)	5						CAGCGCGATGGCCCCCAGCGC	0.652													9	28					0	0	0.008291	0	0	
PKN1	5585	broad.mit.edu	37	19	14554393	14554393	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:14554393C>T	uc002myp.2	+	3	602	c.434C>T	c.(433-435)GCG>GTG	p.A145V	PKN1_uc002myq.2_Missense_Mutation_p.A151V	NM_002741	NP_002732	Q16512	PKN1_HUMAN	protein kinase N1 isoform 2	145	REM 2.				activation of JUN kinase activity|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	endosome|nucleus|plasma membrane	androgen receptor binding|ATP binding|chromatin binding|GTP-Rho binding|histone binding|histone deacetylase binding|histone kinase activity (H3-T11 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein kinase C activity|protein kinase C binding|Rac GTPase binding			ovary(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8						AAGCAGGGGGCGGAGAACATG	0.622													7	19					0	0	0.003080	0	0	
ZNF333	84449	broad.mit.edu	37	19	14815942	14815942	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:14815942G>A	uc002mzn.2	+	6	517	c.383G>A	c.(382-384)CGG>CAG	p.R128Q	ZNF333_uc010dzq.2_Missense_Mutation_p.R128Q|ZNF333_uc002mzk.3_Missense_Mutation_p.R19Q|ZNF333_uc002mzl.3_Missense_Mutation_p.R128Q|ZNF333_uc002mzm.2_Silent_p.P68P|ZNF333_uc010dzr.1_RNA	NM_032433	NP_115809	Q96JL9	ZN333_HUMAN	zinc finger protein 333	128					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						CGAGAGGACCGGCCAGCTCTC	0.617													5	22					0	0	0.003080	0	0	
OR7C1	26664	broad.mit.edu	37	19	14910601	14910601	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:14910601G>A	uc010xnz.1	-	1	348	c.348C>T	c.(346-348)ACC>ACT	p.T116T		NM_198944	NP_945182	O76099	OR7C1_HUMAN	olfactory receptor, family 7, subfamily C,	116	Helical; Name=3; (Potential).				sensory perception of smell|spermatogenesis	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2						AGGCCATCACGGTCAAGAGTA	0.478													10	44					0	0	0.000978	0	0	
OR7C2	26658	broad.mit.edu	37	19	15052847	15052847	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:15052847G>A	uc010xoc.1	+	1	547	c.547G>A	c.(547-549)GAA>AAA	p.E183K		NM_012377	NP_036509	O60412	OR7C2_HUMAN	olfactory receptor, family 7, subfamily C,	183	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	Ovarian(108;0.203)					TGATCCTTCCGAAGTCCTGAA	0.443													5	117					0	0	0.001168	0	0	
AKAP8	10270	broad.mit.edu	37	19	15472567	15472567	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:15472567C>T	uc002nav.2	-	11	1430	c.1369G>A	c.(1369-1371)GCA>ACA	p.A457T	AKAP8_uc010dzy.2_Missense_Mutation_p.A6T|AKAP8_uc010dzz.1_RNA|AKAP8_uc010xog.1_Missense_Mutation_p.A271T	NM_005858	NP_005849	O43823	AKAP8_HUMAN	A-kinase anchor protein 8	457					signal transduction	nuclear matrix				ovary(1)|breast(1)	2						TTTGGTTTTGCGGTTTCTTTC	0.438													8	80					0	0	0.008291	0	0	
AKAP8L	26993	broad.mit.edu	37	19	15511828	15511828	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:15511828G>A	uc002naw.1	-	6	942	c.843C>T	c.(841-843)GGC>GGT	p.G281G	AKAP8L_uc002nax.1_RNA|AKAP8L_uc010xoh.1_Silent_p.G220G|AKAP8L_uc002nay.1_Silent_p.G281G|AKAP8L_uc002naz.2_Silent_p.G129G	NM_014371	NP_055186	Q9ULX6	AKP8L_HUMAN	A kinase (PRKA) anchor protein 8-like	281						cytoplasm|nuclear matrix	DEAD/H-box RNA helicase binding|DNA binding|zinc ion binding			ovary(1)	1						CAGGACTGCCGCCCTGCTTTC	0.607													7	23					0	0	0.003080	0	0	
CYP4F12	66002	broad.mit.edu	37	19	15807839	15807839	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:15807839C>T	uc002nbl.2	+	13	1580	c.1519C>T	c.(1519-1521)CGC>TGC	p.R507C		NM_023944	NP_076433			cytochrome P450, family 4, subfamily F,											skin(3)|ovary(2)|central_nervous_system(2)	7	Acute lymphoblastic leukemia(2;0.0367)					ATTGATCATGCGCGCCGAGGG	0.567													4	23					0	0	0.000602	0	0	
Unknown	0	broad.mit.edu	37	19	15884960	15884960	+	RNA	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:15884960G>A	uc002nbo.2	-	3		c.370C>T			uc010xor.1_Silent_p.R34R					Homo sapiens cDNA FLJ60024 complete cds, highly similar to Cytochrome P450 4F12 (EC 1.14.14.1).																		TCCGACGGTGGCGGCTCCACT	0.547													5	9					0	0	0.001984	0	0	
Unknown	0	broad.mit.edu	37	19	15885137	15885137	+	RNA	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:15885137C>T	uc002nbo.2	-	2		c.286G>A			uc010xor.1_Silent_p.A6A					Homo sapiens cDNA FLJ60024 complete cds, highly similar to Cytochrome P450 4F12 (EC 1.14.14.1).																		CATCCTTGGGCGCAATAGCAG	0.567													23	80					0	0	0.003954	0	0	
TMEM38A	79041	broad.mit.edu	37	19	16790841	16790841	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:16790841C>T	uc002nes.2	+	2	262	c.171C>T	c.(169-171)TGC>TGT	p.C57C		NM_024074	NP_076979	Q9H6F2	TM38A_HUMAN	transmembrane protein 38A	57	Helical; (Potential).					integral to membrane|nuclear membrane|sarcoplasmic reticulum membrane	potassium channel activity			central_nervous_system(2)|ovary(1)	3						CCTGGCTGTGCGCCATGCTGC	0.612													8	15					0	0	0.008291	0	0	
NWD1	284434	broad.mit.edu	37	19	16918398	16918398	+	Silent	SNP	C	T	T	rs113245603		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:16918398C>T	uc002neu.3	+	18	4160	c.3738C>T	c.(3736-3738)GGC>GGT	p.G1246G	NWD1_uc002net.3_Silent_p.G1111G|NWD1_uc002nev.3_Silent_p.G1040G			Q149M9	NWD1_HUMAN	RecName: Full=NACHT and WD repeat domain-containing protein 1;	1246	WD 10.						ATP binding			skin(3)|ovary(2)|pancreas(2)	7						CCCTGGCAGGCGAGGAACAAG	0.478													30	98					0	0	0.006999	0	0	
MYO9B	4650	broad.mit.edu	37	19	17295741	17295741	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:17295741C>T	uc010eak.2	+	17	2593	c.2441C>T	c.(2440-2442)TCC>TTC	p.S814F	MYO9B_uc002nfi.2_Missense_Mutation_p.S814F|MYO9B_uc002nfj.1_Missense_Mutation_p.S814F	NM_004145	NP_004136	Q13459	MYO9B_HUMAN	myosin IXB isoform 1	814	Myosin head-like.				actin filament-based movement	cell cortex|cytosol|filamentous actin|myosin complex|perinuclear region of cytoplasm	actin binding|ADP binding|ATP binding|ATPase activity|calmodulin binding|metal ion binding|microfilament motor activity|Rho GTPase activator activity			breast(1)	1						ACCACCAAGTCCCTACTGCAC	0.582													23	76					0	0	0.003954	0	0	
ANO8	57719	broad.mit.edu	37	19	17444229	17444229	+	Splice_Site	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:17444229G>A	uc002ngf.2	-	3	509	c.350_splice	c.e3+1	p.S117_splice	ANO8_uc010eap.2_Splice_Site|GTPBP3_uc010xpo.1_5'Flank	NM_020959	NP_066010	Q9HCE9	ANO8_HUMAN	anoctamin 8							chloride channel complex	chloride channel activity			ovary(3)	3						CAGGGGACTCGCCTCTCATAC	0.642													13	28					0	0	0.003163	0	0	
ANO8	57719	broad.mit.edu	37	19	17444267	17444267	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:17444267C>T	uc002ngf.2	-	3	473	c.314G>A	c.(313-315)CGT>CAT	p.R105H	ANO8_uc010eap.2_RNA|GTPBP3_uc010xpo.1_5'Flank	NM_020959	NP_066010	Q9HCE9	ANO8_HUMAN	anoctamin 8	105	Extracellular (Potential).					chloride channel complex	chloride channel activity			ovary(3)	3						GGCGTAGGCACGCGTGTGGCG	0.647													8	33					0	0	0.008291	0	0	
ANO8	57719	broad.mit.edu	37	19	17444269	17444269	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:17444269C>T	uc002ngf.2	-	3	471	c.312G>A	c.(310-312)ACG>ACA	p.T104T	ANO8_uc010eap.2_RNA|GTPBP3_uc010xpo.1_5'Flank	NM_020959	NP_066010	Q9HCE9	ANO8_HUMAN	anoctamin 8	104	Extracellular (Potential).					chloride channel complex	chloride channel activity			ovary(3)	3						CGTAGGCACGCGTGTGGCGGT	0.642													8	33					0	0	0.008291	0	0	
PLVAP	83483	broad.mit.edu	37	19	17487766	17487766	+	Missense_Mutation	SNP	C	T	T	rs144117840		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:17487766C>T	uc002ngk.1	-	1	382	c.332G>A	c.(331-333)CGC>CAC	p.R111H		NM_031310	NP_112600	Q9BX97	PLVAP_HUMAN	plasmalemma vesicle associated protein	111	Extracellular (Potential).					caveola|integral to membrane|perinuclear region of cytoplasm					0						GGCATTGATGCGGTCCAGGTC	0.488													4	19					0	0	0.000602	0	0	
SLC27A1	376497	broad.mit.edu	37	19	17615413	17615413	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:17615413G>A	uc002ngu.1	+	12	1983	c.1933G>A	c.(1933-1935)GCC>ACC	p.A645T	SLC27A1_uc010xpp.1_Missense_Mutation_p.A466T|SLC27A1_uc002ngv.1_Missense_Mutation_p.A247T	NM_198580	NP_940982	Q6PCB7	S27A1_HUMAN	solute carrier family 27, member 1	645	Cytoplasmic (Potential).				cardiolipin biosynthetic process|fatty acid metabolic process|long-chain fatty acid transport|negative regulation of phospholipid biosynthetic process|phosphatidic acid biosynthetic process|phosphatidylcholine biosynthetic process|phosphatidylethanolamine biosynthetic process|phosphatidylinositol biosynthetic process|phosphatidylserine biosynthetic process|transmembrane transport	endomembrane system|integral to membrane	fatty acid transporter activity|nucleotide binding				0						GGGCGCCTTCGCCCTCTGAAG	0.622													8	12					0	0	0.000978	0	0	
GLT25D1	79709	broad.mit.edu	37	19	17678290	17678290	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:17678290G>A	uc002nhc.1	+	4	577	c.565G>A	c.(565-567)GCC>ACC	p.A189T	GLT25D1_uc010eax.1_5'Flank	NM_024656	NP_078932	Q8NBJ5	GT251_HUMAN	glycosyltransferase 25 domain containing 1	189					lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen	procollagen galactosyltransferase activity				0						GACGGTGGTCGCCCCCATGCT	0.577													8	29					0	0	0.006214	0	0	
SLC5A5	6528	broad.mit.edu	37	19	17983460	17983460	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:17983460G>A	uc002nhr.3	+	1	679	c.332G>A	c.(331-333)CGC>CAC	p.R111H		NM_000453	NP_000444	Q92911	SC5A5_HUMAN	solute carrier family 5 (sodium iodide	111	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|cellular response to cAMP|cellular response to gonadotropin stimulus|hormone biosynthetic process	integral to membrane|nucleus|plasma membrane	iodide transmembrane transporter activity|sodium:iodide symporter activity			skin(2)|ovary(1)|central_nervous_system(1)	4						GTCTTCTACCGCCTGGGCCTC	0.667													3	8					0	0	0.004672	0	0	
KCNN1	3780	broad.mit.edu	37	19	18092607	18092607	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:18092607C>T	uc002nht.2	+	5	898	c.588C>T	c.(586-588)TGC>TGT	p.C196C	KCNN1_uc010xqa.1_Silent_p.C196C	NM_002248	NP_002239	Q92952	KCNN1_HUMAN	potassium intermediate/small conductance	196	Helical; Name=Segment S3; (Potential).				synaptic transmission	voltage-gated potassium channel complex	calmodulin binding|small conductance calcium-activated potassium channel activity				0						TGGCAGTGTGCGCCATTCACC	0.677													4	9					0	0	0.009096	0	0	
UPF1	5976	broad.mit.edu	37	19	18974986	18974986	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:18974986G>A	uc002nkg.2	+	20	3091	c.2816G>A	c.(2815-2817)CGC>CAC	p.R939H	UPF1_uc002nkf.2_Missense_Mutation_p.R928H|UPF1_uc002nkh.2_Missense_Mutation_p.R183H	NM_002911	NP_002902	Q92900	RENT1_HUMAN	regulator of nonsense transcripts 1	939					cell cycle|DNA repair|DNA replication|histone mRNA catabolic process|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational termination	chromatin|cytoplasmic mRNA processing body|exon-exon junction complex	ATP binding|ATP-dependent RNA helicase activity|chromatin binding|DNA binding|protein binding|protein binding|RNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2						CAGGGAGCCCGCTTCATGACC	0.597													23	61					0	0	0.006320	0	0	
DDX49	54555	broad.mit.edu	37	19	19033426	19033426	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:19033426G>A	uc002nkq.1	+	6	706	c.649G>A	c.(649-651)GAG>AAG	p.E217K	HOMER3_uc002nko.1_Intron|HOMER3_uc002nkp.1_Intron|DDX49_uc002nkr.1_RNA|DDX49_uc002nks.1_Missense_Mutation_p.E110K|DDX49_uc002nkt.1_Missense_Mutation_p.E99K	NM_019070	NP_061943	Q9Y6V7	DDX49_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 49	217							ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1			Epithelial(12;0.0289)			GAGCACCGTGGAGCAGCTGGA	0.637													8	22					0	0	0.008291	0	0	
SFRS14	10147	broad.mit.edu	37	19	19112441	19112441	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:19112441C>T	uc002nkx.2	-	8	3118	c.2972G>A	c.(2971-2973)CGT>CAT	p.R991H	SFRS14_uc002nkz.1_Missense_Mutation_p.R1005H|SFRS14_uc002nla.1_Missense_Mutation_p.R991H|SFRS14_uc002nlb.2_Missense_Mutation_p.R991H|SFRS14_uc010xqk.1_Missense_Mutation_p.R760H	NM_014884	NP_055699	Q8IX01	SUGP2_HUMAN	splicing factor, arginine/serine-rich 14	991					mRNA processing|RNA splicing	nucleus	RNA binding				0			OV - Ovarian serous cystadenocarcinoma(5;3.05e-05)|Epithelial(12;0.00161)			GGACATGGGACGACCCCGAGG	0.423													17	45					0	0	0.007413	0	0	
ARMC6	93436	broad.mit.edu	37	19	19153682	19153682	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:19153682G>A	uc002nld.2	+	3	540	c.192G>A	c.(190-192)TCG>TCA	p.S64S	ARMC6_uc002nlc.2_Silent_p.S39S|ARMC6_uc010xql.1_Intron|ARMC6_uc002nle.2_Silent_p.S39S|ARMC6_uc010xqm.1_Silent_p.S64S	NM_033415	NP_219483	Q6NXE6	ARMC6_HUMAN	armadillo repeat containing 6	64							protein binding				0			OV - Ovarian serous cystadenocarcinoma(5;5.66e-06)|Epithelial(12;0.000391)			AGTTTGAATCGCAAGGTAGGG	0.597													15	33					0	0	0.004990	0	0	
NCAN	1463	broad.mit.edu	37	19	19337827	19337827	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:19337827C>T	uc002nlz.2	+	7	1704	c.1605C>T	c.(1603-1605)GGC>GGT	p.G535G	NCAN_uc010ecc.1_Silent_p.G99G	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	535					axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			TGGGCAGTGGCCAGAGCCGGA	0.647													8	16					0	0	0.008291	0	0	
HAPLN4	404037	broad.mit.edu	37	19	19369400	19369400	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:19369400C>T	uc002nmb.2	-	4	804	c.749G>A	c.(748-750)CGC>CAC	p.R250H	HAPLN4_uc002nmc.2_Missense_Mutation_p.R250H	NM_023002	NP_075378	Q86UW8	HPLN4_HUMAN	hyaluronan and proteoglycan link protein 4	250	Link 1.				cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding			pancreas(1)	1			Epithelial(12;0.00575)			CCCGTAGTTGCGCAGGCCCCC	0.697													5	12					0	0	0.001168	0	0	
KIAA0892	23383	broad.mit.edu	37	19	19452166	19452166	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:19452166C>T	uc002nmk.3	+	7	724	c.685C>T	c.(685-687)CGT>TGT	p.R229C	KIAA0892_uc002nml.3_5'Flank	NM_015329	NP_056144	Q9Y6X3	SCC4_HUMAN	hypothetical protein LOC23383 precursor	229					cell division|maintenance of mitotic sister chromatid cohesion	chromatin|nucleoplasm|SMC loading complex	protein N-terminus binding				0						GGAGTCGCTGCGTGTCTTCTT	0.632													5	16					0	0	0.001168	0	0	
ATP13A1	57130	broad.mit.edu	37	19	19770544	19770544	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:19770544G>A	uc002nnh.3	-	3	571	c.543C>T	c.(541-543)TAC>TAT	p.Y181Y	ATP13A1_uc002nng.2_Silent_p.Y63Y	NM_020410	NP_065143	Q9HD20	AT131_HUMAN	ATPase type 13A1	181	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(3)|large_intestine(2)|central_nervous_system(1)	6						CCAGGGCATCGTAGGAATACT	0.542													10	35					0	0	0.000978	0	0	
ZNF253	56242	broad.mit.edu	37	19	19989293	19989293	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:19989293C>T	uc002noj.2	+	2	99	c.7C>T	c.(7-9)CCA>TCA	p.P3S	ZNF253_uc002nok.2_Intron|ZNF253_uc002nol.2_Intron	NM_021047	NP_066385	O75346	ZN253_HUMAN	zinc finger protein 253	3					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TTTCCAGGGACCATTGCAATT	0.398													29	105					0	0	0.002836	0	0	
ZNF626	199777	broad.mit.edu	37	19	20807894	20807894	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:20807894G>A	uc002npb.1	-	4	939	c.789C>T	c.(787-789)GGC>GGT	p.G263G	ZNF626_uc002npc.1_Silent_p.G187G	NM_001076675	NP_001070143	Q68DY1	ZN626_HUMAN	zinc finger protein 626 isoform 1	263	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						TAAAGGCTTTGCCACATTTAT	0.398													11	102					0	0	0.001368	0	0	
CCNE1	898	broad.mit.edu	37	19	30313366	30313366	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:30313366C>T	uc002nsn.2	+	11	1149	c.966C>T	c.(964-966)TGC>TGT	p.C322C	CCNE1_uc002nso.2_Silent_p.C307C|CCNE1_uc002nsp.2_Silent_p.C69C	NM_001238	NP_001229	P24864	CCNE1_HUMAN	cyclin E1 isoform 1	322					androgen receptor signaling pathway|cell division|positive regulation of transcription, DNA-dependent|regulation of cyclin-dependent protein kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle	cytosol|nucleoplasm	androgen receptor binding|protein kinase binding|transcription coactivator activity			lung(2)	2	all_cancers(1;2.19e-31)|all_epithelial(1;1.49e-30)|all_lung(1;1.37e-11)|Lung NSC(1;2.35e-11)|Ovarian(5;0.000902)|Breast(6;0.0203)|Esophageal squamous(110;0.195)		UCEC - Uterine corpus endometrioid carcinoma (4;2.65e-06)|Epithelial(1;6.85e-98)|all cancers(1;1.38e-94)|OV - Ovarian serous cystadenocarcinoma(1;1.38e-90)|STAD - Stomach adenocarcinoma(5;5.8e-07)|GBM - Glioblastoma multiforme(4;0.0394)|Lung(7;0.092)|LUAD - Lung adenocarcinoma(5;0.115)|BRCA - Breast invasive adenocarcinoma(6;0.183)|COAD - Colon adenocarcinoma(1;0.188)|Colorectal(1;0.202)			ATCAGTGGTGCGACATAGAGA	0.498													20	130					0	0	0.010504	0	0	
CCNE1	898	broad.mit.edu	37	19	30313453	30313453	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:30313453C>T	uc002nsn.2	+	11	1236	c.1053C>T	c.(1051-1053)GGC>GGT	p.G351G	CCNE1_uc002nso.2_Silent_p.G336G|CCNE1_uc002nsp.2_Silent_p.G98G	NM_001238	NP_001229	P24864	CCNE1_HUMAN	cyclin E1 isoform 1	351					androgen receptor signaling pathway|cell division|positive regulation of transcription, DNA-dependent|regulation of cyclin-dependent protein kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle	cytosol|nucleoplasm	androgen receptor binding|protein kinase binding|transcription coactivator activity			lung(2)	2	all_cancers(1;2.19e-31)|all_epithelial(1;1.49e-30)|all_lung(1;1.37e-11)|Lung NSC(1;2.35e-11)|Ovarian(5;0.000902)|Breast(6;0.0203)|Esophageal squamous(110;0.195)		UCEC - Uterine corpus endometrioid carcinoma (4;2.65e-06)|Epithelial(1;6.85e-98)|all cancers(1;1.38e-94)|OV - Ovarian serous cystadenocarcinoma(1;1.38e-90)|STAD - Stomach adenocarcinoma(5;5.8e-07)|GBM - Glioblastoma multiforme(4;0.0394)|Lung(7;0.092)|LUAD - Lung adenocarcinoma(5;0.115)|BRCA - Breast invasive adenocarcinoma(6;0.183)|COAD - Colon adenocarcinoma(1;0.188)|Colorectal(1;0.202)			ACTTCAGGGGCGTCGCTGATG	0.493													58	165					0	0	0.003610	0	0	
ZNF536	9745	broad.mit.edu	37	19	30935717	30935717	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:30935717C>T	uc002nsu.1	+	2	1386	c.1248C>T	c.(1246-1248)GGC>GGT	p.G416G	ZNF536_uc010edd.1_Silent_p.G416G	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	416					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					TGCCCATGGGCGGCATGTCCC	0.627													10	24					0	0	0.008291	0	0	
ANKRD27	84079	broad.mit.edu	37	19	33096798	33096798	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:33096798C>T	uc002ntn.1	-	24	2592	c.2436G>A	c.(2434-2436)ACG>ACA	p.T812T		NM_032139	NP_115515	Q96NW4	ANR27_HUMAN	ankyrin repeat domain 27 (VPS9 domain)	812	ANK 10.				early endosome to late endosome transport	early endosome|lysosome	GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(2)|skin(2)|pancreas(1)	5	Esophageal squamous(110;0.137)					AAATGAGGGGCGTGTTTCCAC	0.522													6	48					0	0	0.003080	0	0	
SLC7A9	11136	broad.mit.edu	37	19	33355554	33355554	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:33355554G>A	uc002ntv.3	-	3	333	c.216C>T	c.(214-216)TGC>TGT	p.C72C	SLC7A9_uc002ntt.3_Intron|SLC7A9_uc002ntu.3_Silent_p.C72C|SLC7A9_uc002ntw.3_Intron	NM_001126335	NP_001119807	P82251	BAT1_HUMAN	solute carrier family 7, member 9	72	Helical; (Potential).				blood coagulation|cellular amino acid metabolic process|ion transport|leukocyte migration|protein complex assembly	integral to plasma membrane	L-cystine transmembrane transporter activity|neutral amino acid transmembrane transporter activity|peptide antigen binding			skin(1)	1	Esophageal squamous(110;0.137)				L-Cystine(DB00138)	CGAGGACCCCGCAAGCCGCCC	0.632													8	31					0	0	0.000978	0	0	
GPATCH1	55094	broad.mit.edu	37	19	33602674	33602674	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:33602674C>T	uc002nug.1	+	12	1944	c.1630C>T	c.(1630-1632)CGA>TGA	p.R544*	GPATCH1_uc002nuh.1_5'Flank	NM_018025	NP_060495	Q9BRR8	GPTC1_HUMAN	G patch domain containing 1	544						catalytic step 2 spliceosome	nucleic acid binding			skin(1)	1	Esophageal squamous(110;0.137)					AGAGTGGGAGCGAGGCCGTGA	0.587													19	48					0	0	0.010504	0	0	
PEPD	5184	broad.mit.edu	37	19	34002042	34002042	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:34002042G>A	uc002nur.3	-	3	356	c.221C>T	c.(220-222)GCG>GTG	p.A74V	PEPD_uc010xrr.1_Missense_Mutation_p.A74V|PEPD_uc010xrs.1_Intron	NM_000285	NP_000276	P12955	PEPD_HUMAN	prolidase isoform 1	74					cellular amino acid metabolic process|collagen catabolic process|proteolysis		aminopeptidase activity|dipeptidase activity|manganese ion binding|metallocarboxypeptidase activity			ovary(2)	2	Esophageal squamous(110;0.137)					GACACCGAACGCCCAGTGAAA	0.572													7	25					0	0	0.003080	0	0	
CHST8	64377	broad.mit.edu	37	19	34263263	34263263	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:34263263C>T	uc002nus.3	+	5	1075	c.570C>T	c.(568-570)CAC>CAT	p.H190H	CHST8_uc002nut.3_Silent_p.H190H|CHST8_uc002nuu.2_Silent_p.H190H	NM_001127895	NP_001121367	Q9H2A9	CHST8_HUMAN	carbohydrate (N-acetylgalactosamine 4-0)	190	Lumenal (Potential).				carbohydrate biosynthetic process|central nervous system development|hormone biosynthetic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi membrane|integral to membrane	N-acetylgalactosamine 4-O-sulfotransferase activity			skin(2)|large_intestine(1)|ovary(1)	4	Esophageal squamous(110;0.162)					AGGACCGCCACCGCGTGCTCT	0.701													5	12					0	0	0.001984	0	0	
KIAA0355	9710	broad.mit.edu	37	19	34818453	34818453	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:34818453A>G	uc002nvd.3	+	4	1692	c.833A>G	c.(832-834)GAC>GGC	p.D278G		NM_014686	NP_055501	O15063	K0355_HUMAN	hypothetical protein LOC9710	278										ovary(1)	1	Esophageal squamous(110;0.162)					ATAAAAATCGACAGTGCTTTG	0.393													5	101					0	0	0.000602	0	0	
GPI	2821	broad.mit.edu	37	19	34856175	34856175	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:34856175G>A	uc002nvg.1	+	1	107	c.4G>A	c.(4-6)GCC>ACC	p.A2T	GPI_uc002nvf.2_Missense_Mutation_p.A41T|GPI_uc010xrv.1_Missense_Mutation_p.A41T|GPI_uc010xrw.1_Missense_Mutation_p.A2T|GPI_uc010edl.1_Missense_Mutation_p.A2T|GPI_uc002nvh.1_5'UTR	NM_000175	NP_000166	P06744	G6PI_HUMAN	glucose phosphate isomerase	2					angiogenesis|gluconeogenesis|glycolysis|hemostasis|humoral immune response	cytosol|extracellular space|nucleus|plasma membrane	cytokine activity|glucose-6-phosphate isomerase activity|growth factor activity			ovary(1)|kidney(1)	2	Esophageal squamous(110;0.162)					TCCCGCCATGGCCGCTCTCAC	0.682													4	8					0	0	0.009096	0	0	
ZNF599	148103	broad.mit.edu	37	19	35250659	35250659	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:35250659C>T	uc010edn.1	-	4	1435	c.1047G>A	c.(1045-1047)ACG>ACA	p.T349T	ZNF599_uc010edm.1_Silent_p.T312T	NM_001007248	NP_001007249	Q96NL3	ZN599_HUMAN	zinc finger protein 599	349	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2	all_lung(56;1.13e-07)|Lung NSC(56;1.81e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.138)			TGGAGCGGTGCGTGAAGGCCT	0.423													6	55					0	0	0.001984	0	0	
ZNF30	90075	broad.mit.edu	37	19	35434572	35434572	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:35434572C>T	uc010edp.1	+	5	1080	c.702C>T	c.(700-702)TGC>TGT	p.C234C	ZNF30_uc002nxf.2_Silent_p.C153C|ZNF30_uc010edq.1_Silent_p.C235C|ZNF30_uc010edr.1_Silent_p.C235C	NM_194325	NP_919306	P17039	ZNF30_HUMAN	zinc finger protein 30 isoform b	234	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_lung(56;8.38e-08)|Lung NSC(56;1.31e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)	GBM - Glioblastoma multiforme(1328;0.0265)		CATATGAGTGCGGGGAATGTG	0.433													6	31					0	0	0.001168	0	0	
ATP4A	495	broad.mit.edu	37	19	36050941	36050941	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:36050941G>A	uc002oal.1	-	7	851	c.822C>T	c.(820-822)GAC>GAT	p.D274D	ATP4A_uc010eee.1_5'Flank	NM_000704	NP_000695	P20648	ATP4A_HUMAN	hydrogen/potassium-exchanging ATPase 4A	274	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport	integral to plasma membrane	ATP binding|hydrogen:potassium-exchanging ATPase activity|magnesium ion binding			ovary(1)	1	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		Esomeprazole(DB00736)|Lansoprazole(DB00448)|Omeprazole(DB00338)|Pantoprazole(DB00213)|Rabeprazole(DB01129)|Trifluoperazine(DB00831)	TGATGGTGCGGTCGCCCGTGT	0.647													8	25					0	0	0.003080	0	0	
RBM42	79171	broad.mit.edu	37	19	36120532	36120532	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:36120532C>T	uc002oan.2	+	2	315	c.239C>T	c.(238-240)GCT>GTT	p.A80V	RBM42_uc010xsx.1_Missense_Mutation_p.A80V|RBM42_uc010eef.2_Missense_Mutation_p.A80V|RBM42_uc002oao.2_Missense_Mutation_p.A80V|RBM42_uc002oap.2_Missense_Mutation_p.A80V|RBM42_uc002oaq.2_Missense_Mutation_p.A80V|RBM42_uc010eeg.2_Missense_Mutation_p.A80V	NM_024321	NP_077297	Q9BTD8	RBM42_HUMAN	RNA binding motif protein 42	80						cytoplasm|nucleus	nucleotide binding|RNA binding				0	all_lung(56;1.58e-07)|Lung NSC(56;2.43e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			GTCCCAGCGGCTCCTGTGATC	0.582													14	40					0	0	0.004007	0	0	
MLL4	9757	broad.mit.edu	37	19	36219029	36219029	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:36219029G>A	uc010eei.2	+	20	4528	c.4528G>A	c.(4528-4530)GCC>ACC	p.A1510T		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	1510					chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CTGGTTCGACGCCCACGACCC	0.627													5	12					0	0	0.001168	0	0	
WDR62	284403	broad.mit.edu	37	19	36556874	36556874	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:36556874C>T	uc002odc.2	+	4	438	c.347C>T	c.(346-348)GCT>GTT	p.A116V	WDR62_uc002odd.2_Missense_Mutation_p.A116V|WDR62_uc002odb.2_Missense_Mutation_p.A116V	NM_173636	NP_775907	O43379	WDR62_HUMAN	WD repeat domain 62 isoform 2	116	WD 1.				cerebral cortex development	nucleus					0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			TCTCTCAGTGCTCTGGCCTTC	0.582													7	185					0	0	0.003080	0	0	
WDR62	284403	broad.mit.edu	37	19	36583697	36583697	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:36583697C>T	uc002odc.2	+	19	2408	c.2317C>T	c.(2317-2319)CGG>TGG	p.R773W	WDR62_uc002odd.2_Missense_Mutation_p.R773W	NM_173636	NP_775907	O43379	WDR62_HUMAN	WD repeat domain 62 isoform 2	773					cerebral cortex development	nucleus					0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			TGACAAGAAGCGGAGTGGCCA	0.483													5	26					0	0	0.008291	0	0	
WDR62	284403	broad.mit.edu	37	19	36594764	36594764	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:36594764G>A	uc002odc.2	+	30	4110	c.4019G>A	c.(4018-4020)CGC>CAC	p.R1340H	WDR62_uc002odd.2_Missense_Mutation_p.R1345H	NM_173636	NP_775907	O43379	WDR62_HUMAN	WD repeat domain 62 isoform 2	1340					cerebral cortex development	nucleus					0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			TCTGCCTTTCGCCCAAGTCTC	0.687													6	23					0	0	0.003080	0	0	
CAPNS1	826	broad.mit.edu	37	19	36634008	36634008	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:36634008G>A	uc002odj.2	+	6	591	c.434G>A	c.(433-435)CGC>CAC	p.R145H	CAPNS1_uc002odi.1_Missense_Mutation_p.R145H|CAPNS1_uc002odk.2_Missense_Mutation_p.R145H|CAPNS1_uc002odl.2_Missense_Mutation_p.R145H	NM_001749	NP_001740	P04632	CPNS1_HUMAN	calpain, small subunit 1	145	EF-hand 2.				positive regulation of cell proliferation	cytoplasm|plasma membrane	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity				0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			GACACATGTCGCAGCATGGTG	0.522													36	108					0	0	0.005524	0	0	
ZFP82	284406	broad.mit.edu	37	19	36884211	36884211	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:36884211C>A	uc002ody.1	-	5	1266	c.1031G>T	c.(1030-1032)GGG>GTG	p.G344V		NM_133466	NP_597723	Q8N141	ZFP82_HUMAN	zinc finger protein 82 homolog	344	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2						AAAGGCCTTCCCGCATTCCTT	0.433													25	82					3.08376e-08	3.2952e-08	0.003330	1	0	
ZNF382	84911	broad.mit.edu	37	19	37118277	37118277	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:37118277G>A	uc002oek.2	+	5	1591	c.1478G>A	c.(1477-1479)GGG>GAG	p.G493E	ZNF382_uc010efa.2_Missense_Mutation_p.G444E|ZNF382_uc010efb.2_Missense_Mutation_p.G492E|ZNF382_uc002oel.2_Missense_Mutation_p.G492E	NM_032825	NP_116214	Q96SR6	ZN382_HUMAN	zinc finger protein 382	493	Required for transcriptional repression activity; probably mediates sequence- specific DNA-binding (By similarity).|C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			AAATCCAATGGGTGTCCTCAG	0.443													20	76					0	0	0.010504	0	0	
ZNF790	388536	broad.mit.edu	37	19	37316578	37316578	+	Translation_Start_Site	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:37316578G>A	uc002oew.2	-	2	63	c.-56C>T	c.(-58--54)CACGC>CATGC		uc002oev.1_Intron	NM_206894	NP_996777	Q6PG37	ZN790_HUMAN	zinc finger protein 790						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|skin(1)	2	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			GTGAGGCAGCGTGCTGGGAAA	0.463													18	74					0	0	0.007413	0	0	
ZNF585A	199704	broad.mit.edu	37	19	37643373	37643373	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:37643373G>A	uc002ofo.1	-	5	1659	c.1428C>T	c.(1426-1428)ACC>ACT	p.T476T	ZNF585A_uc002ofm.1_Silent_p.T421T|ZNF585A_uc002ofn.1_Silent_p.T421T	NM_199126	NP_954577	Q6P3V2	Z585A_HUMAN	zinc finger protein 585A	476	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TTGACCGGTTGGTGAATGCCT	0.413													30	101					0	0	0.004878	0	0	
ZNF570	148268	broad.mit.edu	37	19	37966838	37966838	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:37966838G>A	uc002ogk.1	+	3	618	c.89G>A	c.(88-90)TGT>TAT	p.C30Y	ZNF570_uc010efl.1_Missense_Mutation_p.C86Y|ZNF570_uc010xtr.1_5'UTR	NM_144694	NP_653295	Q96NI8	ZN570_HUMAN	zinc finger protein 570	30	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GAATGGGATTGTCTGGATTCT	0.368													21	55					0	0	0.001882	0	0	
SIPA1L3	23094	broad.mit.edu	37	19	38590640	38590640	+	Silent	SNP	G	A	A	rs142598144		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:38590640G>A	uc002ohk.2	+	5	2213	c.1704G>A	c.(1702-1704)ACG>ACA	p.T568T		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	568					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			AAGATGCTACGCCCACAGCCA	0.607													11	33					0	0	0.001855	0	0	
SIPA1L3	23094	broad.mit.edu	37	19	38600928	38600928	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:38600928C>T	uc002ohk.2	+	8	2704	c.2195C>T	c.(2194-2196)GCG>GTG	p.A732V		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	732	Rap-GAP.				regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			GAGCCTGGCGCGCTACCGTTC	0.547													24	55					0	0	0.003954	0	0	
YIF1B	90522	broad.mit.edu	37	19	38799966	38799966	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:38799966G>A	uc002ohz.2	-	3	349	c.300C>T	c.(298-300)ATC>ATT	p.I100I	YIF1B_uc002ohw.2_Silent_p.I69I|YIF1B_uc002ohx.2_Silent_p.I85I|YIF1B_uc010xtx.1_Silent_p.I83I|YIF1B_uc010xty.1_Silent_p.I69I|YIF1B_uc002oia.2_Silent_p.I97I|YIF1B_uc002ohy.2_Silent_p.I97I|YIF1B_uc002oib.2_Silent_p.I97I	NM_001039672	NP_001034761	Q5BJH7	YIF1B_HUMAN	Yip1 interacting factor homolog B isoform 5	100	Cytoplasmic (Potential).					integral to membrane					0	all_cancers(60;1.07e-06)		Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			TGAAGCGGTCGATCTGGGGAG	0.587													9	65					0	0	0.008291	0	0	
FAM98C	147965	broad.mit.edu	37	19	38895587	38895587	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:38895587G>A	uc002oin.1	+	4	408	c.389G>A	c.(388-390)TGC>TAC	p.C130Y	FAM98C_uc002oio.1_Missense_Mutation_p.C130Y|FAM98C_uc010xtz.1_Intron	NM_174905	NP_777565	Q17RN3	FA98C_HUMAN	hypothetical protein LOC147965	130										skin(1)	1	all_cancers(60;3.95e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			CGCCTCCTGTGCCTCCGCTCT	0.592													10	167					0	0	0.000978	0	0	
RASGRP4	115727	broad.mit.edu	37	19	38901885	38901885	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:38901885G>A	uc002oir.2	-	15	1936	c.1722C>T	c.(1720-1722)TGC>TGT	p.C574C	RASGRP4_uc010efz.1_RNA|RASGRP4_uc010ega.1_RNA|RASGRP4_uc010xua.1_Silent_p.C505C|RASGRP4_uc010xub.1_Silent_p.C540C|RASGRP4_uc010xuc.1_Silent_p.C482C|RASGRP4_uc010xud.1_Silent_p.C477C|RASGRP4_uc010xue.1_Silent_p.C385C|RASGRP4_uc010egb.2_Silent_p.C560C	NM_170604	NP_733749	Q8TDF6	GRP4_HUMAN	RAS guanyl releasing protein 4 isoform a	574	Phorbol-ester/DAG-type.				activation of phospholipase C activity|cell growth|cell proliferation|myeloid cell differentiation|positive regulation of Ras protein signal transduction|regulation of G-protein coupled receptor protein signaling pathway|response to extracellular stimulus|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine kinase signaling pathway	cytoplasm|membrane fraction|plasma membrane|soluble fraction	diacylglycerol binding|GTP-dependent protein binding|metal ion binding|Ras guanyl-nucleotide exchange factor activity			pancreas(1)|lung(1)|skin(1)	3	all_cancers(60;4.21e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			AACACAGCCCGCACTCTGGGG	0.627													8	10					0	0	0.003080	0	0	
RYR1	6261	broad.mit.edu	37	19	38945909	38945909	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:38945909G>A	uc002oit.2	+	14	1605	c.1475G>A	c.(1474-1476)CGC>CAC	p.R492H	RYR1_uc002oiu.2_Missense_Mutation_p.R492H	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	492	Cytoplasmic.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	TGCATAGACCGCCTAAATGTC	0.502													15	88					0	0	0.004007	0	0	
RYR1	6261	broad.mit.edu	37	19	38958369	38958369	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:38958369C>T	uc002oit.2	+	25	3428	c.3298C>T	c.(3298-3300)CGC>TGC	p.R1100C	RYR1_uc002oiu.2_Missense_Mutation_p.R1100C	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	1100	6 X approximate repeats.|Cytoplasmic.|B30.2/SPRY 2.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	AGGCGAGATGCGCGTGGGCTG	0.622													13	32					0	0	0.004007	0	0	
RYR1	6261	broad.mit.edu	37	19	38976521	38976521	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:38976521C>T	uc002oit.2	+	34	5356	c.5226C>T	c.(5224-5226)CGC>CGT	p.R1742R	RYR1_uc002oiu.2_Silent_p.R1742R	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	1742	Cytoplasmic.|6 X approximate repeats.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CTGAGACCCGCGCCATCACGC	0.627													12	47					0	0	0.001855	0	0	
RYR1	6261	broad.mit.edu	37	19	39052042	39052042	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:39052042G>A	uc002oit.2	+	90	12702	c.12572G>A	c.(12571-12573)CGC>CAC	p.R4191H	RYR1_uc002oiu.2_Missense_Mutation_p.R4186H|RYR1_uc002oiv.1_Missense_Mutation_p.R1100H	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	4191					muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CGCATCGAGCGCATCTACTTC	0.657													9	38					0	0	0.000978	0	0	
MAP4K1	11184	broad.mit.edu	37	19	39104547	39104547	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:39104547C>T	uc002oix.1	-	8	614	c.506G>A	c.(505-507)CGC>CAC	p.R169H	MAP4K1_uc002oiy.1_Missense_Mutation_p.R169H|MAP4K1_uc010xug.1_5'UTR	NM_007181	NP_009112	Q92918	M4K1_HUMAN	mitogen-activated protein kinase kinase kinase	169	Protein kinase.				activation of JUN kinase activity|peptidyl-serine phosphorylation		ATP binding|MAP kinase kinase kinase kinase activity|protein binding|small GTPase regulator activity			skin(4)|lung(3)|ovary(1)	8	all_cancers(60;6.42e-06)|Ovarian(47;0.103)		Lung(45;0.000751)|LUSC - Lung squamous cell carcinoma(53;0.00272)			GAAAGAGAGGCGTCTGGCCAG	0.622													5	14					0	0	0.001984	0	0	
CAPN12	147968	broad.mit.edu	37	19	39229238	39229238	+	Silent	SNP	C	T	T	rs148191501	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:39229238C>T	uc002ojd.1	-	6	1089	c.780G>A	c.(778-780)GCG>GCA	p.A260A	CAPN12_uc002ojc.1_5'Flank	NM_144691	NP_653292	Q6ZSI9	CAN12_HUMAN	calpain 12	260	Calpain catalytic.				proteolysis	intracellular	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			central_nervous_system(1)|pancreas(1)	2	all_cancers(60;2.87e-05)|Ovarian(47;0.0454)		Lung(45;0.00416)|LUSC - Lung squamous cell carcinoma(53;0.00741)			TGATGGAATACGCGTGTCCCT	0.627													8	43					0	0	0.000978	0	0	
NFKBIB	4793	broad.mit.edu	37	19	39399417	39399417	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:39399417G>A	uc002ojw.2	+	6	1074	c.1016G>A	c.(1015-1017)CGG>CAG	p.R339Q	NFKBIB_uc002ojx.2_3'UTR|NFKBIB_uc002ojy.2_3'UTR	NM_002503	NP_002494	Q15653	IKBB_HUMAN	nuclear factor of kappa light polypeptide gene	339					innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transcription, DNA-dependent	cytosol|nucleus	protein binding|signal transducer activity|transcription coactivator activity			lung(1)|kidney(1)	2	all_cancers(60;4.39e-06)|Ovarian(47;0.0454)		Lung(45;0.000419)|LUSC - Lung squamous cell carcinoma(53;0.000554)			AGCCAAACCCGGCTGCCTCCC	0.547													3	17					0	0	0.003080	0	0	
FBXO27	126433	broad.mit.edu	37	19	39516156	39516156	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:39516156G>A	uc002okh.2	-	6	829	c.747C>T	c.(745-747)CGC>CGT	p.R249R		NM_178820	NP_849142	Q8NI29	FBX27_HUMAN	F-box protein 27	249	FBA.				protein catabolic process	SCF ubiquitin ligase complex	glycoprotein binding			ovary(1)	1	all_cancers(60;3.79e-07)|all_lung(34;1.26e-07)|Lung NSC(34;1.46e-07)|all_epithelial(25;4.69e-07)|Ovarian(47;0.0454)		Lung(45;0.000419)|LUSC - Lung squamous cell carcinoma(53;0.000554)			AAGACACAAAGCGGACGCCCA	0.587													17	39					0	0	0.004990	0	0	
PAPL	390928	broad.mit.edu	37	19	39590899	39590899	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:39590899G>A	uc002oki.2	+	5	812	c.538G>A	c.(538-540)GCC>ACC	p.A180T	PAPL_uc010egl.2_Intron	NM_001004318	NP_001004318	Q6ZNF0	PAPL_HUMAN	iron/zinc purple acid phosphatase-like protein	180						extracellular region	acid phosphatase activity|metal ion binding				0						TCAGGACAACGCCCGTGTTGG	0.577													23	48					0	0	0.003330	0	0	
SAMD4B	55095	broad.mit.edu	37	19	39871413	39871413	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:39871413C>T	uc002olb.2	+	13	2871	c.1836C>T	c.(1834-1836)GGC>GGT	p.G612G	SAMD4B_uc002ola.2_Silent_p.G612G	NM_018028	NP_060498	Q5PRF9	SMAG2_HUMAN	sterile alpha motif domain containing 4B	612							protein binding				0	all_cancers(60;2.5e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;6.4e-07)|Ovarian(47;0.0512)		Epithelial(26;9.6e-28)|all cancers(26;9.14e-25)|Lung(45;0.000168)|LUSC - Lung squamous cell carcinoma(53;0.000199)			GCCTTGGAGGCCAGGGCCGAC	0.677													3	6					0	0	0.004672	0	0	
SUPT5H	6829	broad.mit.edu	37	19	39949669	39949669	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:39949669C>T	uc002olo.3	+	7	593	c.414C>T	c.(412-414)GGC>GGT	p.G138G	SUPT5H_uc002olp.3_Silent_p.G138G|SUPT5H_uc002olq.3_Silent_p.G134G|SUPT5H_uc002oln.3_Silent_p.G138G|SUPT5H_uc002olr.3_Silent_p.G138G	NM_001111020	NP_001104490	O00267	SPT5H_HUMAN	suppressor of Ty 5 homolog isoform a	138					cell cycle|chromatin remodeling|mRNA capping|negative regulation of transcription elongation, DNA-dependent|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription elongation from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|response to organic substance|retroviral genome replication|transcription elongation from RNA polymerase II promoter	nucleoplasm	enzyme binding|protein heterodimerization activity			ovary(3)|pancreas(1)	4	all_cancers(60;6.69e-07)|all_lung(34;2.66e-08)|Lung NSC(34;3e-08)|all_epithelial(25;1.57e-06)|Ovarian(47;0.159)		Epithelial(26;3.9e-26)|all cancers(26;1.35e-23)|LUSC - Lung squamous cell carcinoma(53;0.000657)			AAGAACTGGGCGAGTATTACA	0.567													31	89					0	0	0.003755	0	0	
PSMC4	5704	broad.mit.edu	37	19	40486604	40486604	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:40486604A>G	uc002omq.2	+	10	1160	c.1123A>G	c.(1123-1125)ATT>GTT	p.I375V	PSMC4_uc002omr.2_Missense_Mutation_p.I344V	NM_006503	NP_006494	P43686	PRS6B_HUMAN	proteasome 26S ATPase subunit 4 isoform 1	375					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	mitochondrion|nucleus|proteasome complex	ATP binding|ATPase activity|protein binding			ovary(1)	1	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					AGGAGCTGATATTAACTCCAT	0.522													8	79					0	0	0.004482	0	0	
ZNF780B	163131	broad.mit.edu	37	19	40541185	40541185	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:40541185C>T	uc002omu.2	-	5	1646	c.1581G>A	c.(1579-1581)AAG>AAA	p.K527K	ZNF780B_uc002omv.2_Silent_p.K379K	NM_001005851	NP_001005851	Q9Y6R6	Z780B_HUMAN	zinc finger protein 780B	527					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					ATTCATAGGGCTTCTCACCAG	0.423													10	92					0	0	0.008291	0	0	
AKT2	208	broad.mit.edu	37	19	40747910	40747910	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:40747910G>A	uc002onf.2	-	6	770	c.508C>T	c.(508-510)CGG>TGG	p.R170W	AKT2_uc010egs.2_Missense_Mutation_p.R170W|AKT2_uc010egt.2_Missense_Mutation_p.R108W|AKT2_uc010xvj.1_Missense_Mutation_p.R108W|AKT2_uc010egu.1_Missense_Mutation_p.R108W|AKT2_uc010xvk.1_Missense_Mutation_p.R170W|AKT2_uc002one.2_Missense_Mutation_p.R66W	NM_001626	NP_001617	P31751	AKT2_HUMAN	AKT2 kinase	170	Protein kinase.				insulin receptor signaling pathway|negative regulation of plasma membrane long-chain fatty acid transport|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process	cytosol|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)	2			Lung(22;0.000499)			GCCTTCTCCCGCACCAGGATG	0.587			A		ovarian|pancreatic 								15	25					0	0	0.004990	0	0	
HIPK4	147746	broad.mit.edu	37	19	40889788	40889788	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:40889788C>T	uc002onp.2	-	2	1009	c.724G>A	c.(724-726)GCC>ACC	p.A242T		NM_144685	NP_653286	Q8NE63	HIPK4_HUMAN	homeodomain interacting protein kinase 4	242	Protein kinase.					cytoplasm	ATP binding|protein serine/threonine kinase activity			ovary(1)|stomach(1)	2			Lung(22;4.95e-05)|LUSC - Lung squamous cell carcinoma(20;0.000292)			GCCTTGCAGGCGGCGTGCAAC	0.647													4	25					0	0	0.001168	0	0	
HIPK4	147746	broad.mit.edu	37	19	40895719	40895719	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:40895719G>A	uc002onp.2	-	1	376	c.91C>T	c.(91-93)CGG>TGG	p.R31W		NM_144685	NP_653286	Q8NE63	HIPK4_HUMAN	homeodomain interacting protein kinase 4	31	Protein kinase.					cytoplasm	ATP binding|protein serine/threonine kinase activity			ovary(1)|stomach(1)	2			Lung(22;4.95e-05)|LUSC - Lung squamous cell carcinoma(20;0.000292)			CCCGTGCTCCGCCGCCAGCCC	0.607													11	27					0	0	0.001855	0	0	
HNRNPUL1	11100	broad.mit.edu	37	19	41810156	41810156	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:41810156G>A	uc002oqb.3	+	13	2541	c.2252G>A	c.(2251-2253)AGC>AAC	p.S751N	CYP2F1_uc010xvw.1_Intron|HNRNPUL1_uc002opz.3_Missense_Mutation_p.S651N|HNRNPUL1_uc002oqa.3_Missense_Mutation_p.S651N|HNRNPUL1_uc010ehm.2_Missense_Mutation_p.S751N|HNRNPUL1_uc002oqc.3_Missense_Mutation_p.S637N|HNRNPUL1_uc002oqe.3_Intron|HNRNPUL1_uc002oqd.3_Missense_Mutation_p.S651N|HNRNPUL1_uc010ehn.2_Missense_Mutation_p.S651N|HNRNPUL1_uc010eho.2_Missense_Mutation_p.S651N|HNRNPUL1_uc010xvy.1_Missense_Mutation_p.S651N|HNRNPUL1_uc010ehp.2_Missense_Mutation_p.S607N|HNRNPUL1_uc002oqf.3_Missense_Mutation_p.S275N	NM_007040	NP_008971	Q9BUJ2	HNRL1_HUMAN	heterogeneous nuclear ribonucleoprotein U-like 1	751	Pro-rich.|Necessary for interaction with TP53.				nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|response to virus|transcription, DNA-dependent	heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	enzyme binding|RNA binding			central_nervous_system(1)|skin(1)	2						AGCAGCTACAGCCCTCCACAG	0.557													21	44					0	0	0.005443	0	0	
BCKDHA	593	broad.mit.edu	37	19	41884222	41884222	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:41884222G>A	uc002oqm.3	+	2	359	c.8G>A	c.(7-9)AGC>AAC	p.S3N	CYP2F1_uc010xvw.1_Intron|TMEM91_uc002oqi.2_Missense_Mutation_p.S3N|TMEM91_uc010ehq.2_Missense_Mutation_p.S3N|TMEM91_uc002oql.2_Missense_Mutation_p.S3N|TMEM91_uc010ehr.2_Missense_Mutation_p.S3N|TMEM91_uc010ehs.2_Missense_Mutation_p.S3N|TMEM91_uc010eht.2_Missense_Mutation_p.S3N|TMEM91_uc002oqk.3_Missense_Mutation_p.S3N|TMEM91_uc002oqn.2_Missense_Mutation_p.S3N	NM_000709	NP_000700	P12694	ODBA_HUMAN	branched chain keto acid dehydrogenase E1, alpha	Error:Variant_position_missing_in_P12694_after_alignment					branched chain family amino acid catabolic process	mitochondrial alpha-ketoglutarate dehydrogenase complex	3-methyl-2-oxobutanoate dehydrogenase (2-methylpropanoyl-transferring) activity|alpha-ketoacid dehydrogenase activity|carboxy-lyase activity|metal ion binding|protein binding				0						GCCATGGACAGCCCTAGTCTT	0.552													11	74					0	0	0.000978	0	0	
BCKDHA	593	broad.mit.edu	37	19	41916541	41916541	+	Splice_Site	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:41916541G>A	uc002oqq.2	+	2	138	c.109_splice	c.e2-1	p.H37_splice	CYP2F1_uc010xvw.1_Intron|BCKDHA_uc002oqm.3_Splice_Site_p.H71_splice|BCKDHA_uc002oqp.1_Splice_Site|BCKDHA_uc002oqr.2_Splice_Site_p.H37_splice|BCKDHA_uc010xvz.1_Intron	NM_000709	NP_000700	P12694	ODBA_HUMAN	branched chain keto acid dehydrogenase E1, alpha						branched chain family amino acid catabolic process	mitochondrial alpha-ketoglutarate dehydrogenase complex	3-methyl-2-oxobutanoate dehydrogenase (2-methylpropanoyl-transferring) activity|alpha-ketoacid dehydrogenase activity|carboxy-lyase activity|metal ion binding|protein binding				0						CTCTTCCCCAGCACCCCCCCA	0.557													13	21					0	0	0.001855	0	0	
CD79A	973	broad.mit.edu	37	19	42383170	42383170	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:42383170G>A	uc002orv.2	+	2	375	c.190G>A	c.(190-192)GTC>ATC	p.V64I	CD79A_uc002oru.2_Missense_Mutation_p.V64I	NM_001783	NP_001774	P11912	CD79A_HUMAN	CD79A antigen isoform 1 precursor	64	Ig-like C2-type.|Extracellular (Potential).				B cell differentiation|B cell proliferation|B cell receptor signaling pathway	B cell receptor complex|external side of plasma membrane|integral to membrane|membrane raft|multivesicular body	transmembrane receptor activity			ovary(2)|pancreas(1)	3						CAACGCCAACGTCACCTGGTG	0.602			O|S		DLBCL								4	36					0	0	0.001168	0	0	
ARHGEF1	9138	broad.mit.edu	37	19	42409386	42409386	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:42409386G>A	uc002orx.2	+	24	2418	c.2309G>A	c.(2308-2310)CGC>CAC	p.R770H	ARHGEF1_uc002ory.2_Missense_Mutation_p.R737H|ARHGEF1_uc002orz.2_Missense_Mutation_p.R608H|ARHGEF1_uc002osa.2_Missense_Mutation_p.R785H|ARHGEF1_uc002osb.2_Missense_Mutation_p.R752H|ARHGEF1_uc002osc.2_Missense_Mutation_p.R524H|ARHGEF1_uc002osd.2_Missense_Mutation_p.R429H|ARHGEF1_uc002ose.2_Missense_Mutation_p.R214H	NM_004706	NP_004697	Q92888	ARHG1_HUMAN	Rho guanine nucleotide exchange factor 1 isoform	770					cell proliferation|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway|positive regulation of axonogenesis|regulation of Rho protein signal transduction|Rho protein signal transduction	cytosol|plasma membrane	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(3)|large_intestine(1)	4		Renal(1328;0.000518)|Hepatocellular(1079;0.0046)|Medulloblastoma(540;0.0425)		Epithelial(262;5.89e-46)|GBM - Glioblastoma multiforme(1328;2.49e-12)|STAD - Stomach adenocarcinoma(1328;0.00644)		CCTGCCTCTCGCCCTAAGCCC	0.667													11	20					0	0	0.007413	0	0	
ZNF574	64763	broad.mit.edu	37	19	42584239	42584239	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:42584239G>A	uc002osm.3	+	2	1650	c.1481G>A	c.(1480-1482)CGC>CAC	p.R494H	ZNF574_uc002osk.3_Missense_Mutation_p.R584H	NM_022752	NP_073589	Q6ZN55	ZN574_HUMAN	zinc finger protein 574	494					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.059)				CTGGAGCGGCGCCATAAATGC	0.602													17	51					0	0	0.006122	0	0	
DEDD2	162989	broad.mit.edu	37	19	42703764	42703764	+	Silent	SNP	G	A	A	rs17852469	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:42703764G>A	uc002osu.1	-	5	875	c.807C>T	c.(805-807)GGC>GGT	p.G269G	DEDD2_uc002osv.1_RNA|DEDD2_uc002osw.1_Silent_p.G264G|DEDD2_uc002osx.1_3'UTR|DEDD2_uc002osy.1_Silent_p.G269G	NM_133328	NP_579874	Q8WXF8	DEDD2_HUMAN	death effector domain-containing  DNA binding	269					activation of pro-apoptotic gene products|apoptotic nuclear change|cellular homeostasis|induction of apoptosis via death domain receptors|intracellular signal transduction|negative regulation of transcription, DNA-dependent|RNA processing|rRNA catabolic process|transcription, DNA-dependent	nucleolus	DNA binding|receptor signaling complex scaffold activity				0		Prostate(69;0.0704)				GCAGCAGGGCGCCACTCAGGT	0.647													7	18					0	0	0.001984	0	0	
ZNF526	116115	broad.mit.edu	37	19	42729380	42729380	+	Silent	SNP	C	T	T	rs138082392	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:42729380C>T	uc002osz.1	+	3	981	c.825C>T	c.(823-825)TGC>TGT	p.C275C		NM_133444	NP_597701	Q8TF50	ZN526_HUMAN	zinc finger protein 526	275					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0704)				CTCAGGGCTGCGGGGACTGTC	0.582													7	5					0	0	0.003080	0	0	
GSK3A	2931	broad.mit.edu	37	19	42737272	42737272	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:42737272G>T	uc002otb.1	-	8	1207	c.1088C>A	c.(1087-1089)CCC>CAC	p.P363H	GSK3A_uc002ota.1_Missense_Mutation_p.P281H|GSK3A_uc002otc.2_RNA	NM_019884	NP_063937	P49840	GSK3A_HUMAN	glycogen synthase kinase 3 alpha	363	Protein kinase.				insulin receptor signaling pathway|negative regulation of glucose import|negative regulation of insulin receptor signaling pathway|negative regulation of transferase activity|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of protein catabolic process	beta-catenin destruction complex|cytosol	ATP binding|protein kinase A catalytic subunit binding|protein serine/threonine kinase activity|tau-protein kinase activity			ovary(2)|lung(2)	4		Prostate(69;0.00682)				CTTTGTCCAGGGGTGAGCTTT	0.557													5	115					3.59834e-05	3.78692e-05	0.001168	1	0	
ERF	2077	broad.mit.edu	37	19	42753169	42753169	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:42753169C>T	uc002ote.3	-	4	1253	c.1095G>A	c.(1093-1095)TCG>TCA	p.S365S	ERF_uc002otd.3_Silent_p.S96S	NM_006494	NP_006485	P50548	ERF_HUMAN	Ets2 repressor factor	365	Poly-Ser.				cell proliferation|regulation of transcription from RNA polymerase II promoter	nucleus	ligand-regulated transcription factor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			lung(1)|kidney(1)|central_nervous_system(1)|skin(1)	4		Prostate(69;0.00682)				AAGAGGATGACGAGGCCGAGG	0.687													9	29					0	0	0.004482	0	0	
CIC	23152	broad.mit.edu	37	19	42797777	42797777	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:42797777C>T	uc002otf.1	+	16	3869	c.3829C>T	c.(3829-3831)CGC>TGC	p.R1277C		NM_015125	NP_055940	Q96RK0	CIC_HUMAN	capicua homolog	1277	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(4)|breast(4)|lung(1)|central_nervous_system(1)|skin(1)	11		Prostate(69;0.00682)				TTCAGACTGGCGCGTCCCTGG	0.652			T	DUX4	soft tissue sarcoma								6	15					0	0	0.001984	0	0	
PRR19	284338	broad.mit.edu	37	19	42814738	42814738	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:42814738C>T	uc002oti.2	+	3	1295	c.917C>T	c.(916-918)CCT>CTT	p.P306L	PRR19_uc002oth.1_3'UTR|PRR19_uc002otj.2_Missense_Mutation_p.P306L|TMEM145_uc002otk.1_5'Flank	NM_199285	NP_954979	A6NJB7	PRR19_HUMAN	proline rich 19	306	Pro-rich.										0		Prostate(69;0.00682)				GTTGGCCTCCCTCAGCCCCTG	0.652													18	37					0	0	0.002299	0	0	
PSG7	5676	broad.mit.edu	37	19	43439709	43439709	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:43439709G>A	uc002ovl.3	-	2	379	c.277C>T	c.(277-279)CCT>TCT	p.P93S	PSG3_uc002ouf.2_Intron|PSG11_uc002ouw.2_Intron|PSG10_uc002ouv.1_Intron|PSG6_uc002ovh.1_Intron|PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Intron|PSG7_uc010xwl.1_Intron	NM_002783	NP_002774	Q13046	PSG7_HUMAN	pregnancy specific beta-1-glycoprotein 7	93	Ig-like V-type.				female pregnancy	extracellular region					0		Prostate(69;0.00682)				CTGTATGCAGGCCCATATTTA	0.408													11	333					0	0	0.003163	0	0	
XRCC1	7515	broad.mit.edu	37	19	44056177	44056177	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:44056177C>T	uc002owt.2	-	9	1194	c.1074G>A	c.(1072-1074)ACG>ACA	p.T358T	XRCC1_uc010xwp.1_Silent_p.T327T	NM_006297	NP_006288	P18887	XRCC1_HUMAN	X-ray repair cross complementing protein 1	358	BRCT 1.				base-excision repair|single strand break repair	nucleoplasm	damaged DNA binding|protein binding			ovary(2)|lung(2)|large_intestine(1)|prostate(1)|breast(1)	7		Prostate(69;0.0153)				ACATGAGGTGCGTGCTGTCCC	0.627								Other_BER_factors					6	27					0	0	0.001168	0	0	
ZNF230	7773	broad.mit.edu	37	19	44513032	44513032	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:44513032G>A	uc002oyb.1	+	3	357	c.106G>A	c.(106-108)GTG>ATG	p.V36M		NM_006300	NP_006291	Q9UIE0	ZN230_HUMAN	zinc finger protein 230	36	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)				GTACCAAGACGTGATGCTTGA	0.527													50	124					0	0	0.003610	0	0	
ZNF234	10780	broad.mit.edu	37	19	44661004	44661004	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:44661004C>T	uc002oym.2	+	6	1142	c.835C>T	c.(835-837)CAG>TAG	p.Q279*	ZNF234_uc002oyl.3_Nonsense_Mutation_p.Q279*	NM_006630	NP_006621	Q14588	ZN234_HUMAN	zinc finger protein 234	279	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0435)				TCAGGAACATCAGAGAATTCA	0.413													18	176					0	0	0.007413	0	0	
ZNF233	353355	broad.mit.edu	37	19	44778756	44778756	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:44778756A>G	uc002oyz.1	+	5	2070	c.1943A>G	c.(1942-1944)TAC>TGC	p.Y648C	ZNF235_uc002oyx.1_Intron|ZNF235_uc010eji.2_Intron|ZNF233_uc002oyy.1_Missense_Mutation_p.Y463C	NM_181756	NP_861421	A6NK53	ZN233_HUMAN	zinc finger protein 233	648					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)	2		Prostate(69;0.0435)|all_neural(266;0.226)				GAGAAACCATACAAATGTTTT	0.418													17	83					0	0	0.006122	0	0	
CBLC	23624	broad.mit.edu	37	19	45284250	45284250	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:45284250A>C	uc002ozs.2	+	2	505	c.442A>C	c.(442-444)ATG>CTG	p.M148L	CBLC_uc010ejt.2_Missense_Mutation_p.M148L	NM_012116	NP_036248	Q9ULV8	CBLC_HUMAN	Cas-Br-M (murine) ecotropic retroviral	148	EF-hand-like.|Cbl-PTB.				cell surface receptor linked signaling pathway|negative regulation of epidermal growth factor receptor activity|negative regulation of MAP kinase activity|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	calcium ion binding|epidermal growth factor receptor binding|phosphotyrosine binding|SH3 domain binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(1)|skin(1)	6	Lung NSC(12;0.00136)|all_lung(12;0.00371)	Ovarian(192;0.231)				CTGTGGACACATGTACCAGCT	0.632			M		AML								10	30					0	0	0.008291	0	0	
BCAM	4059	broad.mit.edu	37	19	45316510	45316510	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:45316510G>A	uc002ozu.2	+	5	552	c.508G>A	c.(508-510)GCC>ACC	p.A170T	BCAM_uc002ozt.1_Missense_Mutation_p.A170T	NM_005581	NP_005572	P50895	BCAM_HUMAN	basal cell adhesion molecule isoform 1	170	Extracellular (Potential).|Ig-like V-type 2.				cell-matrix adhesion	integral to plasma membrane	laminin binding|laminin receptor activity			skin(1)	1	Lung NSC(12;0.000789)|all_lung(12;0.00218)	Ovarian(192;0.0728)|all_neural(266;0.112)				GCCTCAGATCGCCACCTGCAA	0.622													10	24					0	0	0.006214	0	0	
OPA3	80207	broad.mit.edu	37	19	46032371	46032371	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:46032371G>A	uc002pcj.3	-	2	586	c.486C>T	c.(484-486)CAC>CAT	p.H162H		NM_001017989	NP_001017989	Q9H6K4	OPA3_HUMAN	OPA3 protein isoform a	162	Potential.				response to stimulus|visual perception	mitochondrion					0		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00778)|GBM - Glioblastoma multiforme(486;0.0976)|Epithelial(262;0.242)		GGAGGCAGAGGTGGGCTCGCA	0.701													4	12					0	0	0.001168	0	0	
STRN4	29888	broad.mit.edu	37	19	47225261	47225261	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:47225261C>T	uc002pfl.2	-	16	2107	c.2074G>A	c.(2074-2076)GCA>ACA	p.A692T	STRN4_uc002pfm.2_Missense_Mutation_p.A699T|STRN4_uc010xyf.1_RNA	NM_013403	NP_037535	Q9NRL3	STRN4_HUMAN	zinedin isoform 1	692	WD 6.					cytoplasm|membrane	armadillo repeat domain binding|calmodulin binding|protein complex binding|protein phosphatase 2A binding				0		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000563)|all cancers(93;0.00138)|Epithelial(262;0.0217)|GBM - Glioblastoma multiforme(486;0.035)		ATCAGGAATGCGCCGTTGGGG	0.627													16	37					0	0	0.004007	0	0	
GRLF1	2909	broad.mit.edu	37	19	47423942	47423942	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:47423942G>A	uc010ekv.2	+	1	2010	c.2010G>A	c.(2008-2010)TCG>TCA	p.S670S		NM_004491	NP_004482	Q9NRY4	RHG35_HUMAN	glucocorticoid receptor DNA binding factor 1	670					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)		CAAAGGAATCGCTATCCTATG	0.473													6	29					0	0	0.003080	0	0	
C5AR1	728	broad.mit.edu	37	19	47823356	47823356	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:47823356G>A	uc002pgj.1	+	2	371	c.322G>A	c.(322-324)GCC>ACC	p.A108T		NM_001736	NP_001727	P21730	C5AR_HUMAN	complement component 5 receptor 1	108	Extracellular (Potential).				activation of MAPK activity|activation of phospholipase C activity|cellular defense response|elevation of cytosolic calcium ion concentration|immune response|sensory perception of chemical stimulus	integral to plasma membrane	C5a anaphylatoxin receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4		all_cancers(25;2e-09)|all_epithelial(76;9.95e-08)|all_lung(116;7.27e-07)|Lung NSC(112;1.6e-06)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		all cancers(93;0.000267)|OV - Ovarian serous cystadenocarcinoma(262;0.000618)|Epithelial(262;0.0142)|GBM - Glioblastoma multiforme(486;0.0242)		TGGCGGGGCCGCCTGCAGCAT	0.607													8	24					0	0	0.008291	0	0	
DHX34	9704	broad.mit.edu	37	19	47876049	47876049	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:47876049G>A	uc010xyn.1	+	8	2172	c.1831G>A	c.(1831-1833)GCA>ACA	p.A611T	DHX34_uc010elc.1_Missense_Mutation_p.A526T	NM_014681	NP_055496	Q14147	DHX34_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 34	611						intracellular	ATP binding|ATP-dependent helicase activity|RNA binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)	5		all_cancers(25;1.65e-09)|all_epithelial(76;9.95e-08)|all_lung(116;7.27e-07)|Lung NSC(112;1.6e-06)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		all cancers(93;7.16e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000489)|GBM - Glioblastoma multiforme(486;0.00413)|Epithelial(262;0.0132)		CATCGCAGCCGCACTTAGCGT	0.687													4	14					0	0	0.006214	0	0	
DHX34	9704	broad.mit.edu	37	19	47884536	47884536	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:47884536G>A	uc010xyn.1	+	16	3594	c.3253G>A	c.(3253-3255)GCC>ACC	p.A1085T	DHX34_uc010xyo.1_Missense_Mutation_p.A214T	NM_014681	NP_055496	Q14147	DHX34_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 34	1085						intracellular	ATP binding|ATP-dependent helicase activity|RNA binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)	5		all_cancers(25;1.65e-09)|all_epithelial(76;9.95e-08)|all_lung(116;7.27e-07)|Lung NSC(112;1.6e-06)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		all cancers(93;7.16e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000489)|GBM - Glioblastoma multiforme(486;0.00413)|Epithelial(262;0.0132)		GGAGCGCATCGCCCATGAGAA	0.672													10	21					0	0	0.001368	0	0	
NAPA	8775	broad.mit.edu	37	19	47995277	47995277	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:47995277C>T	uc002pha.1	-	8	961	c.661G>A	c.(661-663)GCC>ACC	p.A221T	uc002pgz.1_Intron|NAPA_uc002phb.1_Missense_Mutation_p.A182T|NAPA_uc002phc.1_Missense_Mutation_p.A108T|NAPA_uc002phd.1_Missense_Mutation_p.A221T	NM_003827	NP_003818	P54920	SNAA_HUMAN	N-ethylmaleimide-sensitive factor attachment	221					cellular membrane fusion|intra-Golgi vesicle-mediated transport|post-Golgi vesicle-mediated transport	cytosol					0		all_cancers(25;1.55e-10)|all_epithelial(76;3.4e-08)|all_lung(116;1.73e-07)|Lung NSC(112;3.95e-07)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		OV - Ovarian serous cystadenocarcinoma(262;0.000466)|all cancers(93;0.000739)|Epithelial(262;0.0168)|GBM - Glioblastoma multiforme(486;0.049)		GCTACCTTGGCGTTGAGCATG	0.627													11	47					0	0	0.002450	0	0	
ZNF114	163071	broad.mit.edu	37	19	48790081	48790081	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:48790081G>A	uc002pil.1	+	6	1697	c.1200G>A	c.(1198-1200)TCG>TCA	p.S400S	ZNF114_uc010elv.1_Silent_p.S400S|ZNF114_uc002pim.1_Silent_p.S400S|ZNF114_uc002pin.2_Silent_p.S366S	NM_153608	NP_705836	Q8NC26	ZN114_HUMAN	zinc finger protein 114	400	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_epithelial(76;8.01e-05)|all_lung(116;0.000112)|Lung NSC(112;0.000192)|Prostate(7;0.0187)|all_neural(266;0.0228)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;7.56e-05)|all cancers(93;0.000113)|Epithelial(262;0.00962)|GBM - Glioblastoma multiforme(486;0.0153)		TTGCAAAGTCGTCAGGACTTA	0.373													36	104					0	0	0.006999	0	0	
KDELR1	10945	broad.mit.edu	37	19	48887702	48887702	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:48887702G>A	uc002pjb.1	-	4	584	c.389C>T	c.(388-390)GCC>GTC	p.A130V	KDELR1_uc002pja.1_Missense_Mutation_p.A68V	NM_006801	NP_006792	P24390	ERD21_HUMAN	KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum	130	Helical; (Potential).				intracellular protein transport|protein retention in ER lumen|vesicle-mediated transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment|integral to membrane|membrane fraction	KDEL sequence binding|protein binding|receptor activity				0		all_epithelial(76;2.48e-06)|all_lung(116;5.76e-06)|Lung NSC(112;1.18e-05)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Prostate(7;0.122)|Breast(70;0.203)		all cancers(93;0.000114)|OV - Ovarian serous cystadenocarcinoma(262;0.000136)|Epithelial(262;0.01)|GBM - Glioblastoma multiforme(486;0.0145)		CGGCAAGATGGCCACTGACTC	0.597													5	18					0	0	0.001984	0	0	
RASIP1	54922	broad.mit.edu	37	19	49227759	49227759	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:49227759G>A	uc002pki.2	-	10	2576	c.2379C>T	c.(2377-2379)GGC>GGT	p.G793G	RASIP1_uc002pkh.2_Silent_p.G54G	NM_017805	NP_060275	Q5U651	RAIN_HUMAN	Ras-interacting protein 1	793	Dilute.				signal transduction	Golgi stack|perinuclear region of cytoplasm				pancreas(1)	1		all_lung(116;4.89e-06)|all_epithelial(76;7.04e-06)|Lung NSC(112;9.34e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;9.98e-05)|all cancers(93;0.000272)|Epithelial(262;0.0155)|GBM - Glioblastoma multiforme(486;0.0222)		AGAAAGGCCGGCCTTGACCTG	0.567													20	41					0	0	0.003330	0	0	
NUCB1	4924	broad.mit.edu	37	19	49416353	49416353	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:49416353G>A	uc002plb.3	+	6	638	c.566G>A	c.(565-567)CGT>CAT	p.R189H	NUCB1_uc002pla.2_Missense_Mutation_p.R189H|NUCB1_uc002plc.2_Missense_Mutation_p.R189H	NM_006184	NP_006175	Q02818	NUCB1_HUMAN	nucleobindin 1 precursor	189	Potential.|Potential.					ER-Golgi intermediate compartment|extracellular space|Golgi apparatus|membrane|microtubule cytoskeleton	calcium ion binding|DNA binding				0		all_lung(116;4.89e-05)|Lung NSC(112;8.3e-05)|all_epithelial(76;8.64e-05)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000171)|all cancers(93;0.000333)|Epithelial(262;0.0174)|GBM - Glioblastoma multiforme(486;0.0244)		GAGAGACGGCGTTATCTGGAG	0.592													4	56					0	0	0.000602	0	0	
DHDH	27294	broad.mit.edu	37	19	49442881	49442881	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:49442881G>A	uc002ple.1	+	4	582	c.542G>A	c.(541-543)TGT>TAT	p.C181Y		NM_014475	NP_055290	Q9UQ10	DHDH_HUMAN	dimeric dihydrodiol dehydrogenase	181					carbohydrate metabolic process		binding|D-xylose 1-dehydrogenase (NADP+) activity|electron carrier activity|NAD(P)+ transhydrogenase activity|trans-1,2-dihydrobenzene-1,2-diol dehydrogenase activity				0		all_epithelial(76;5.29e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000158)|all cancers(93;0.000258)|Epithelial(262;0.0173)|GBM - Glioblastoma multiforme(486;0.0179)		GGCATCTACTGTGTCCAGTTC	0.572													21	50					0	0	0.001882	0	0	
KCNA7	3743	broad.mit.edu	37	19	49575644	49575644	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:49575644C>T	uc002pmg.2	-	1	555	c.199G>A	c.(199-201)GCC>ACC	p.A67T		NM_031886	NP_114092	Q96RP8	KCNA7_HUMAN	potassium voltage-gated channel, shaker-related	67						voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(1)	1		all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_epithelial(76;3.83e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		all cancers(93;0.000397)|OV - Ovarian serous cystadenocarcinoma(262;0.000519)|GBM - Glioblastoma multiforme(486;0.00541)|Epithelial(262;0.0441)		TAGAGCACGGCGTCGAAGCTG	0.706													3	6					0	0	0.009096	0	0	
CD37	951	broad.mit.edu	37	19	49842133	49842133	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:49842133G>A	uc002pnd.2	+	6	745	c.624G>A	c.(622-624)GCG>GCA	p.A208A	uc002pnb.1_Intron|CD37_uc002pnc.2_RNA|CD37_uc010yam.1_Silent_p.A208A|CD37_uc010yan.1_Silent_p.A140A|CD37_uc002pnf.3_Silent_p.A180A|CD37_uc002pne.2_Silent_p.A140A	NM_001774	NP_001765	P11049	CD37_HUMAN	CD37 antigen isoform A	208	Extracellular (Potential).					integral to membrane					0		all_lung(116;2.81e-06)|Lung NSC(112;5.89e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00088)|GBM - Glioblastoma multiforme(486;0.0443)		GACACCTGGCGCGGTCCAGAC	0.607													5	50					0	0	0.000602	0	0	
TEAD2	8463	broad.mit.edu	37	19	49846621	49846621	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:49846621G>A	uc002pnj.2	-	10	1035	c.944C>T	c.(943-945)GCA>GTA	p.A315V	TEAD2_uc002png.2_Missense_Mutation_p.A318V|TEAD2_uc002pnh.2_Missense_Mutation_p.A319V|TEAD2_uc002pni.2_Missense_Mutation_p.A318V|TEAD2_uc010yao.1_Missense_Mutation_p.A187V|TEAD2_uc010emw.2_Missense_Mutation_p.A318V	NM_003598	NP_003589	Q15562	TEAD2_HUMAN	TEA domain family member 2	315	Transcriptional activation (Potential).				hippo signaling cascade		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(2)|ovary(1)	3		all_lung(116;7.65e-05)|Lung NSC(112;0.000132)|all_neural(266;0.0506)|Ovarian(192;0.15)		OV - Ovarian serous cystadenocarcinoma(262;0.00093)|GBM - Glioblastoma multiforme(486;0.0467)		ACCGGCCCCTGCCTCCTCACC	0.577													6	33					0	0	0.001168	0	0	
RCN3	57333	broad.mit.edu	37	19	50040306	50040306	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:50040306C>T	uc002poj.2	+	4	909	c.462C>T	c.(460-462)GAC>GAT	p.D154D		NM_020650	NP_065701	Q96D15	RCN3_HUMAN	reticulocalbin 3, EF-hand calcium binding domain	154						endoplasmic reticulum lumen	calcium ion binding|protein binding			ovary(1)	1		all_lung(116;7.84e-06)|Lung NSC(112;2.8e-05)|all_neural(266;0.0966)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00295)|GBM - Glioblastoma multiforme(134;0.0159)		AATTTCATGACGTGGAGGATG	0.527													48	139					0	0	0.003610	0	0	
FUZ	80199	broad.mit.edu	37	19	50314650	50314650	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:50314650G>A	uc002ppq.1	-	5	567	c.462C>T	c.(460-462)TGC>TGT	p.C154C	FUZ_uc002ppr.1_Silent_p.C54C|FUZ_uc002pps.1_RNA|FUZ_uc002ppt.1_RNA|FUZ_uc002ppu.1_Silent_p.C118C|FUZ_uc002ppv.1_Silent_p.C104C|FUZ_uc010ybd.1_Silent_p.C154C	NM_025129	NP_079405	Q9BT04	FUZZY_HUMAN	fuzzy homolog	154					cilium assembly|embryonic body morphogenesis|embryonic skeletal system morphogenesis|establishment of planar polarity|hair follicle development|neural tube closure|protein transport|regulation of smoothened signaling pathway	cytoplasm|cytoskeleton					0		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00793)|GBM - Glioblastoma multiforme(134;0.0116)		GAGGAATCACGCAGTCCACAC	0.572													5	16					0	0	0.000602	0	0	
MED25	81857	broad.mit.edu	37	19	50334046	50334046	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:50334046G>A	uc002ppw.1	+	9	1056	c.1003G>A	c.(1003-1005)GCC>ACC	p.A335T	MED25_uc010ybe.1_Missense_Mutation_p.A122T|MED25_uc002ppx.1_Missense_Mutation_p.A116T	NM_030973	NP_112235	Q71SY5	MED25_HUMAN	mediator complex subunit 25	335	Pro-rich.		A -> V (in CMT2B2).		regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm				ovary(1)	1		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00822)|GBM - Glioblastoma multiforme(134;0.0122)		ACCCCCTGGCGCCCCCAAGCC	0.706													3	6					0	0	0.000602	0	0	
PNKP	11284	broad.mit.edu	37	19	50367620	50367620	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:50367620C>T	uc002pqh.2	-	4	591	c.539G>A	c.(538-540)CGC>CAC	p.R180H	PNKP_uc002pqg.2_5'UTR|PNKP_uc002pqi.2_Missense_Mutation_p.R141H|PNKP_uc002pqj.2_Missense_Mutation_p.R180H|PNKP_uc010enm.2_Missense_Mutation_p.R180H|PNKP_uc002pqk.2_Missense_Mutation_p.R180H	NM_007254	NP_009185	Q96T60	PNKP_HUMAN	polynucleotide kinase 3' phosphatase	180					DNA damage response, detection of DNA damage|DNA-dependent DNA replication|nucleotide-excision repair, DNA damage removal|response to oxidative stress|response to radiation	nucleolus	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|damaged DNA binding|double-stranded DNA binding|endonuclease activity|nucleotide kinase activity|polynucleotide 3'-phosphatase activity|protein binding			ovary(1)|kidney(1)	2		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		GBM - Glioblastoma multiforme(134;0.0118)|OV - Ovarian serous cystadenocarcinoma(262;0.0134)		CTTCCCAGAGCGTGTGGTGAT	0.577								Other_BER_factors					7	95					0	0	0.004482	0	0	
IL4I1	259307	broad.mit.edu	37	19	50393017	50393017	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:50393017C>T	uc002pqt.1	-	8	1692	c.1614G>A	c.(1612-1614)TCG>TCA	p.S538S	IL4I1_uc002pqv.1_Silent_p.S547S|IL4I1_uc010eno.1_Silent_p.S546S|IL4I1_uc002pqw.1_Silent_p.S546S|IL4I1_uc002pqu.1_Silent_p.S560S	NM_152899	NP_690863	Q96RQ9	OXLA_HUMAN	interleukin 4 induced 1 isoform 1 precursor	538						lysosome	L-amino-acid oxidase activity			lung(1)|ovary(1)|prostate(1)	3		all_lung(116;1.47e-05)|all_neural(266;0.0459)|Ovarian(192;0.0481)		GBM - Glioblastoma multiforme(134;0.00245)|OV - Ovarian serous cystadenocarcinoma(262;0.0169)		CCAGGTCATGCGAGGGGCTGC	0.617													8	15					0	0	0.006214	0	0	
C19orf41	126123	broad.mit.edu	37	19	50655902	50655902	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:50655902A>G	uc002prp.1	-	7	717	c.630T>C	c.(628-630)TGT>TGC	p.C210C		NM_152358	NP_689571	Q6UXV1	IZUM2_HUMAN	hypothetical protein LOC126123 precursor	210	Cytoplasmic (Potential).					integral to membrane					0		all_neural(266;0.0459)|Ovarian(192;0.0728)		GBM - Glioblastoma multiforme(134;0.00364)|OV - Ovarian serous cystadenocarcinoma(262;0.0052)		GTCTGTATGTACAAGCCCTGG	0.408													52	173					0	0	0.003610	0	0	
JOSD2	126119	broad.mit.edu	37	19	51009492	51009492	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:51009492C>T	uc002psn.1	-	5	536	c.505G>A	c.(505-507)GAG>AAG	p.E169K	JOSD2_uc002pso.1_Missense_Mutation_p.E169K|JOSD2_uc002psp.1_Missense_Mutation_p.E169K|JOSD2_uc002psq.1_Missense_Mutation_p.E127K	NM_138334	NP_612207	Q8TAC2	JOS2_HUMAN	Josephin domain containing 2	169	Josephin.				protein deubiquitination		ubiquitin-specific protease activity				0		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00743)|GBM - Glioblastoma multiforme(134;0.0364)		AGCAGCACCTCGCACAGGCCC	0.682													6	16					0	0	0.001168	0	0	
LRRC4B	94030	broad.mit.edu	37	19	51021314	51021314	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:51021314C>T	uc002pss.2	-	3	1793	c.1656G>A	c.(1654-1656)GCG>GCA	p.A552A		NM_001080457	NP_001073926	Q9NT99	LRC4B_HUMAN	leucine rich repeat containing 4B precursor	552	Extracellular (Potential).					cell junction|integral to membrane|presynaptic membrane				central_nervous_system(1)|skin(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00284)|GBM - Glioblastoma multiforme(134;0.0188)		GCACCGTGAACGCCTTCTCCG	0.672													7	16					0	0	0.003080	0	0	
SHANK1	50944	broad.mit.edu	37	19	51217085	51217085	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:51217085G>A	uc002psx.1	-	5	781	c.762C>T	c.(760-762)GCC>GCT	p.A254A		NM_016148	NP_057232	Q9Y566	SHAN1_HUMAN	SH3 and multiple ankyrin repeat domains 1	254	ANK 2.				cytoskeletal anchoring at plasma membrane	cell junction|cytoplasm|dendrite|membrane fraction|postsynaptic density|postsynaptic membrane	ionotropic glutamate receptor binding			large_intestine(2)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(134;0.0199)		GGGCGCATGCGGCCTTATGCA	0.637													3	20					0	0	0.004672	0	0	
SIGLEC10	89790	broad.mit.edu	37	19	51920664	51920664	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:51920664C>T	uc002pwo.2	-	2	709	c.93G>A	c.(91-93)GTG>GTA	p.V31V	SIGLEC10_uc002pwp.2_Silent_p.V31V|SIGLEC10_uc002pwq.2_Silent_p.V31V|SIGLEC10_uc002pwr.2_Silent_p.V31V|SIGLEC10_uc010ycy.1_Silent_p.V31V|SIGLEC10_uc010ycz.1_Silent_p.V31V|SIGLEC10_uc010eow.2_Intron|SIGLEC10_uc002pws.1_Silent_p.V15V	NM_033130	NP_149121	Q96LC7	SIG10_HUMAN	sialic acid binding Ig-like lectin 10 precursor	31	Extracellular (Potential).|Ig-like V-type.				cell adhesion	extracellular region|integral to membrane|plasma membrane	sugar binding			skin(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000668)|OV - Ovarian serous cystadenocarcinoma(262;0.0101)		GGCCCTCCGGCACCATCACTG	0.592													14	40					0	0	0.001855	0	0	
ZNF613	79898	broad.mit.edu	37	19	52447944	52447944	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:52447944C>T	uc002pxz.1	+	6	1231	c.808C>T	c.(808-810)CGC>TGC	p.R270C	ZNF613_uc002pya.1_Missense_Mutation_p.R234C	NM_001031721	NP_001026891	Q6PF04	ZN613_HUMAN	zinc finger protein 613 isoform 1	270	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_neural(266;0.117)		GBM - Glioblastoma multiforme(134;0.00148)|OV - Ovarian serous cystadenocarcinoma(262;0.0183)		CAAAGCATTCCGCTGGAAATC	0.453													5	123					0	0	0.000602	0	0	
ZNF615	284370	broad.mit.edu	37	19	52496650	52496650	+	Missense_Mutation	SNP	C	T	T	rs147205148		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:52496650C>T	uc002pye.1	-	6	1971	c.1679G>A	c.(1678-1680)CGC>CAC	p.R560H	ZNF615_uc002pyf.1_Missense_Mutation_p.R571H|ZNF615_uc002pyg.1_Missense_Mutation_p.R452H|ZNF615_uc002pyh.1_Missense_Mutation_p.R571H|ZNF615_uc010epi.1_Missense_Mutation_p.R567H|ZNF615_uc010ydg.1_Missense_Mutation_p.R565H	NM_198480	NP_940882	Q8N8J6	ZN615_HUMAN	zinc finger protein 615	560	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5		all_neural(266;0.117)		GBM - Glioblastoma multiforme(134;0.00142)|OV - Ovarian serous cystadenocarcinoma(262;0.019)		TGTATGAGTGCGCCGATGTAC	0.448													10	107					0	0	0.000978	0	0	
ZNF614	80110	broad.mit.edu	37	19	52519532	52519532	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:52519532C>T	uc002pyj.2	-	5	1721	c.1319G>A	c.(1318-1320)CGC>CAC	p.R440H	ZNF614_uc002pyi.3_Intron|ZNF614_uc010epj.2_Missense_Mutation_p.R143H	NM_025040	NP_079316	Q8N883	ZN614_HUMAN	zinc finger protein 614	440	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	5		all_neural(266;0.0505)		GBM - Glioblastoma multiforme(134;0.00513)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		AATAAGAGTGCGCTTTGTGGT	0.408													52	102					0	0	0.003610	0	0	
ZNF616	90317	broad.mit.edu	37	19	52619372	52619372	+	Nonsense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:52619372C>A	uc002pym.2	-	4	1328	c.1045G>T	c.(1045-1047)GGA>TGA	p.G349*	ZNF616_uc002pyn.2_RNA	NM_178523	NP_848618	Q08AN1	ZN616_HUMAN	zinc finger protein 616	349					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00392)|OV - Ovarian serous cystadenocarcinoma(262;0.0189)		GGTTTCTTTCCTGCATGGATT	0.408													63	103					1.44317e-28	1.5846e-28	0.003610	1	0	
PPP2R1A	5518	broad.mit.edu	37	19	52714620	52714620	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:52714620G>A	uc002pyp.2	+	4	537	c.378G>A	c.(376-378)GCG>GCA	p.A126A	PPP2R1A_uc010ydk.1_Silent_p.A71A|PPP2R1A_uc010epm.1_Silent_p.A166A|PPP2R1A_uc002pyq.2_5'UTR	NM_014225	NP_055040	P30153	2AAA_HUMAN	alpha isoform of regulatory subunit A, protein	126	PP2A subunit B binding.|SV40 small T antigen binding.|HEAT 4.|Polyoma small and medium T antigens Binding.				ceramide metabolic process|chromosome segregation|G2/M transition of mitotic cell cycle|inactivation of MAPK activity|induction of apoptosis|negative regulation of cell growth|negative regulation of tyrosine phosphorylation of Stat3 protein|protein complex assembly|protein dephosphorylation|regulation of cell adhesion|regulation of cell differentiation|regulation of DNA replication|regulation of transcription, DNA-dependent|regulation of Wnt receptor signaling pathway|response to organic substance|RNA splicing|second-messenger-mediated signaling	chromosome, centromeric region|cytosol|membrane|microtubule cytoskeleton|mitochondrion|nucleus|protein phosphatase type 2A complex|soluble fraction	antigen binding|protein heterodimerization activity|protein phosphatase type 2A regulator activity			endometrium(31)|ovary(28)|lung(2)|breast(2)|skin(1)|kidney(1)|pancreas(1)	66				GBM - Glioblastoma multiforme(134;0.00456)|OV - Ovarian serous cystadenocarcinoma(262;0.015)		ACCTGGAGGCGCACTTTGTGC	0.662			Mis		clear cell ovarian carcinoma								9	20					0	0	0.003163	0	0	
ZNF480	147657	broad.mit.edu	37	19	52825210	52825210	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:52825210G>A	uc010ydl.1	+	5	777	c.707G>A	c.(706-708)TGC>TAC	p.C236Y	ZNF480_uc002pyv.2_Missense_Mutation_p.C159Y|ZNF480_uc010ydm.1_Missense_Mutation_p.C193Y|ZNF480_uc010epn.2_Missense_Mutation_p.C67Y|uc002pyw.1_Intron	NM_144684	NP_653285	Q8WV37	ZN480_HUMAN	zinc finger protein 480	236	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(134;0.00212)|OV - Ovarian serous cystadenocarcinoma(262;0.00369)		TGTAATTCATGCGGCAAGGTC	0.363													16	46					0	0	0.004007	0	0	
ZNF480	147657	broad.mit.edu	37	19	52825228	52825228	+	Missense_Mutation	SNP	G	A	A	rs148271899	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:52825228G>A	uc010ydl.1	+	5	795	c.725G>A	c.(724-726)CGC>CAC	p.R242H	ZNF480_uc002pyv.2_Missense_Mutation_p.R165H|ZNF480_uc010ydm.1_Missense_Mutation_p.R199H|ZNF480_uc010epn.2_Missense_Mutation_p.R73H|uc002pyw.1_Intron	NM_144684	NP_653285	Q8WV37	ZN480_HUMAN	zinc finger protein 480	242	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(134;0.00212)|OV - Ovarian serous cystadenocarcinoma(262;0.00369)		GTCTTTAGTCGCAATTCACAC	0.363													16	40					0	0	0.003163	0	0	
ZNF528	84436	broad.mit.edu	37	19	52919279	52919279	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:52919279C>T	uc002pzh.2	+	7	1600	c.1174C>T	c.(1174-1176)CGC>TGC	p.R392C	ZNF528_uc002pzi.2_Missense_Mutation_p.R159C	NM_032423	NP_115799	Q3MIS6	ZN528_HUMAN	zinc finger protein 528	392	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(134;0.00249)|OV - Ovarian serous cystadenocarcinoma(262;0.00817)		GGTCTTTGGGCGCAAGTGTTT	0.423													20	60					0	0	0.002299	0	0	
ZNF611	81856	broad.mit.edu	37	19	53208665	53208665	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:53208665G>A	uc002pzz.2	-	7	1960	c.1643C>T	c.(1642-1644)GCG>GTG	p.A548V	ZNF611_uc010eqc.2_Missense_Mutation_p.A478V|ZNF611_uc010ydo.1_Missense_Mutation_p.A478V|ZNF611_uc010ydr.1_Missense_Mutation_p.A479V|ZNF611_uc010ydp.1_Missense_Mutation_p.A548V|ZNF611_uc010ydq.1_Missense_Mutation_p.A548V|ZNF611_uc002qaa.3_Missense_Mutation_p.A478V	NM_030972	NP_112234	Q8N823	ZN611_HUMAN	zinc finger protein 611 isoform a	548	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(262;0.0233)|GBM - Glioblastoma multiforme(134;0.04)		GGAATGACACGCAAAAGCCTT	0.398													26	232					0	0	0.004656	0	0	
ZNF845	91664	broad.mit.edu	37	19	53848784	53848784	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:53848784C>T	uc010ydv.1	+	3	158	c.41C>T	c.(40-42)GCC>GTC	p.A14V	ZNF845_uc010ydw.1_Missense_Mutation_p.A14V	NM_138374	NP_612383	Q96IR2	ZN845_HUMAN	zinc finger protein 845	14	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGGGATGTGGCCATAGAATTC	0.453													42	141					0	0	0.008740	0	0	
ZNF845	91664	broad.mit.edu	37	19	53855127	53855127	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:53855127G>A	uc010ydv.1	+	4	1316	c.1199G>A	c.(1198-1200)CGC>CAC	p.R400H	ZNF845_uc010ydw.1_Missense_Mutation_p.R400H	NM_138374	NP_612383	Q96IR2	ZN845_HUMAN	zinc finger protein 845	400	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TCCCTTACACGCCATCGTAGA	0.403													6	116					0	0	0.001168	0	0	
ZNF331	55422	broad.mit.edu	37	19	54080668	54080668	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:54080668G>A	uc002qbx.1	+	7	2288	c.854G>A	c.(853-855)AGC>AAC	p.S285N	ZNF331_uc002qby.1_Missense_Mutation_p.S285N|ZNF331_uc002qbz.1_Missense_Mutation_p.S285N|ZNF331_uc002qca.1_Missense_Mutation_p.S285N|ZNF331_uc010eqr.1_Missense_Mutation_p.S285N|ZNF331_uc002qcb.1_Missense_Mutation_p.S285N|ZNF331_uc002qcc.1_Missense_Mutation_p.S285N|ZNF331_uc002qcd.1_Missense_Mutation_p.S285N	NM_018555	NP_061025	Q9NQX6	ZN331_HUMAN	zinc finger protein 331	285	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)	6				GBM - Glioblastoma multiforme(134;0.00555)		TGTGGTTCAAGCCTCATTCAG	0.413			T	?	follicular thyroid adenoma								21	58					0	0	0.002780	0	0	
MYADM	91663	broad.mit.edu	37	19	54376938	54376938	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:54376938C>T	uc002qcl.2	+	3	303	c.155C>T	c.(154-156)TCG>TTG	p.S52L	MYADM_uc002qcm.2_Missense_Mutation_p.S52L|MYADM_uc002qcn.2_Missense_Mutation_p.S52L|MYADM_uc002qco.2_Missense_Mutation_p.S52L|MYADM_uc002qcp.2_Missense_Mutation_p.S52L	NM_001020820	NP_001018656	Q96S97	MYADM_HUMAN	myeloid-associated differentiation marker	52	MARVEL 1.|Helical; (Potential).					integral to membrane				ovary(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.0488)		GTGGCCTTCTCGCTGGTGGCT	0.657											OREG0003650	type=REGULATORY REGION|Gene=MYADM|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	5	19					0	0	0.006214	0	0	
MYADM	91663	broad.mit.edu	37	19	54377441	54377441	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:54377441G>A	uc002qcl.2	+	3	806	c.658G>A	c.(658-660)GCC>ACC	p.A220T	MYADM_uc002qcm.2_Missense_Mutation_p.A220T|MYADM_uc002qcn.2_Missense_Mutation_p.A220T|MYADM_uc002qco.2_Missense_Mutation_p.A220T|MYADM_uc002qcp.2_Missense_Mutation_p.A220T	NM_001020820	NP_001018656	Q96S97	MYADM_HUMAN	myeloid-associated differentiation marker	220	MARVEL 2.|Helical; (Potential).					integral to membrane				ovary(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.0488)		AGCGGCCATCGCCATCCTGCT	0.632													9	58					0	0	0.006214	0	0	
PRKCG	5582	broad.mit.edu	37	19	54406360	54406360	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:54406360G>T	uc002qcq.1	+	15	1891	c.1609G>T	c.(1609-1611)GAT>TAT	p.D537Y	PRKCG_uc010yeg.1_Missense_Mutation_p.D537Y|PRKCG_uc010yeh.1_Missense_Mutation_p.D424Y	NM_002739	NP_002730	P05129	KPCG_HUMAN	protein kinase C, gamma	537	Protein kinase.				activation of phospholipase C activity|cell death|intracellular signal transduction|negative regulation of protein catabolic process|negative regulation of protein ubiquitination|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of mismatch repair|synaptic transmission	cytosol	ATP binding|protein kinase C activity|zinc ion binding			lung(4)|ovary(2)|pancreas(2)|large_intestine(1)	9	all_cancers(19;0.0462)|all_epithelial(19;0.0258)|all_lung(19;0.185)|Ovarian(34;0.19)|Lung NSC(19;0.218)			GBM - Glioblastoma multiforme(134;0.0521)		GAAGTCTGTCGATTGGTGGTC	0.542													6	281					3.09899e-07	3.29863e-07	0.004482	1	0	
TFPT	29844	broad.mit.edu	37	19	54618073	54618073	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:54618073C>T	uc010yej.1	-	2	437	c.31G>A	c.(31-33)GCA>ACA	p.A11T	TFPT_uc010erd.2_Missense_Mutation_p.A11T|PRPF31_uc002qdh.2_5'Flank|PRPF31_uc010yek.1_5'Flank	NM_013342	NP_037474	P0C1Z6	TFPT_HUMAN	TCF3 (E2A) fusion partner	11					apoptosis|DNA recombination|DNA repair|induction of apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|Ino80 complex	DNA binding|protein binding				0	all_cancers(19;0.004)|all_epithelial(19;0.00195)|all_lung(19;0.0193)|Lung NSC(19;0.0358)|Breast(117;0.137)|Ovarian(34;0.19)					CCCACGGCTGCCATGGTCCTG	0.413			T	TCF3	pre-B ALL								14	44					0	0	0.004007	0	0	
TMC4	147798	broad.mit.edu	37	19	54669181	54669181	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:54669181C>T	uc010erf.2	-	6	1067	c.935G>A	c.(934-936)CGC>CAC	p.R312H	TMC4_uc002qdn.2_5'Flank|TMC4_uc002qdo.2_Missense_Mutation_p.R306H	NM_001145303	NP_001138775	Q7Z404	TMC4_HUMAN	transmembrane channel-like 4 isoform 1	312	Extracellular (Potential).					integral to membrane				pancreas(1)	1	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					GATGCGCTGGCGCAGCCGCAC	0.632													5	9					0	0	0.001984	0	0	
LILRA4	23547	broad.mit.edu	37	19	54848127	54848127	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:54848127C>T	uc002qfj.2	-	6	1297	c.1240G>A	c.(1240-1242)GAG>AAG	p.E414K	LILRA4_uc002qfi.2_Missense_Mutation_p.E348K	NM_012276	NP_036408	P59901	LIRA4_HUMAN	leukocyte immunoglobulin-like receptor subfamily	414	Extracellular (Potential).					integral to membrane	receptor activity			upper_aerodigestive_tract(1)|central_nervous_system(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0565)		ACCACGAGCTCCAGGGGCTCA	0.602													6	92					0	0	0.003080	0	0	
LENG8	114823	broad.mit.edu	37	19	54967409	54967409	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:54967409G>A	uc002qfv.1	+	8	1322	c.1178G>A	c.(1177-1179)CGC>CAC	p.R393H	LENG8_uc002qfw.2_Missense_Mutation_p.R430H			Q96PV6	LENG8_HUMAN	RecName: Full=Leukocyte receptor cluster member 8;	393	Ser-rich.						protein binding			central_nervous_system(1)|pancreas(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.139)		TCCCCGACGCGCCACTTCCGC	0.617													12	48					0	0	0.010504	0	0	
LILRB1	10859	broad.mit.edu	37	19	55143618	55143618	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:55143618C>T	uc002qgj.2	+	6	931	c.591C>T	c.(589-591)TGC>TGT	p.C197C	LILRB1_uc010erp.1_Intron|LILRB1_uc002qgl.2_Silent_p.C197C|LILRB1_uc002qgk.2_Silent_p.C197C|LILRB1_uc002qgm.2_Silent_p.C197C|LILRB1_uc010erq.2_Silent_p.C197C|LILRB1_uc010err.2_RNA	NM_006669	NP_006660	Q8NHL6	LIRB1_HUMAN	leukocyte immunoglobulin-like receptor,	197	Ig-like C2-type 2.|Extracellular (Potential).				regulation of immune response|response to virus	integral to membrane|plasma membrane	protein phosphatase 1 binding|receptor activity			large_intestine(1)|ovary(1)|skin(1)	3				GBM - Glioblastoma multiforme(193;0.0188)		GGTACAGGTGCTATGCTTATG	0.592										HNSCC(37;0.09)			6	89					0	0	0.004482	0	0	
KIR3DP1	768329	broad.mit.edu	37	19	55266480	55266480	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:55266480G>A	uc010yfi.1	+	1	7	c.6G>A	c.(4-6)TCG>TCA	p.S2S	KIR2DS4_uc010yfj.1_5'UTR|KIR2DL3_uc010erw.1_Intron|KIR2DL1_uc002qgz.1_Intron|KIR2DL3_uc002qha.1_Intron	NM_001015070	NP_001015070			killer-cell Ig-like receptor												0				GBM - Glioblastoma multiforme(193;0.0192)		GCACCATGTCGCTCACGGTCG	0.597													5	49					0	0	0.003080	0	0	
RDH13	112724	broad.mit.edu	37	19	55568079	55568079	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:55568079C>T	uc002qio.3	-	3	467	c.282G>A	c.(280-282)CGG>CGA	p.R94R	RDH13_uc002qip.2_Silent_p.R23R|RDH13_uc010yfq.1_RNA|RDH13_uc010esr.1_5'Flank	NM_001145971	NP_001139443	Q8NBN7	RDH13_HUMAN	retinol dehydrogenase 13 isoform 1	94							binding|oxidoreductase activity			large_intestine(1)|ovary(1)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(297;0.199)	GBM - Glioblastoma multiforme(193;0.0504)	Vitamin A(DB00162)	AGTCCAGGTGCCGGGCGTTGA	0.517													7	35					0	0	0.006214	0	0	
TMEM190	147744	broad.mit.edu	37	19	55889054	55889054	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:55889054G>A	uc002qkt.1	+	3	206	c.188G>A	c.(187-189)CGC>CAC	p.R63H		NM_139172	NP_631911	Q8WZ59	TM190_HUMAN	transmembrane protein 190 precursor	63	P-type.|Extracellular (Potential).					integral to membrane					0	Breast(117;0.191)		BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.044)		TGCTGCTACCGCAATGGGGTC	0.687													5	10					0	0	0.008291	0	0	
ZNF581	51545	broad.mit.edu	37	19	56156449	56156449	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:56156449G>A	uc002qln.2	+	2	1228	c.512G>A	c.(511-513)CGC>CAC	p.R171H	ZNF581_uc002qlq.2_Missense_Mutation_p.R171H|CCDC106_uc002qlr.2_5'Flank	NM_016535	NP_057619	Q9P0T4	ZN581_HUMAN	zinc finger protein 581	171					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Ovarian(87;0.133)	BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.105)		TCTGGGGAACGCCCGTTTCAG	0.692													11	22					0	0	0.001368	0	0	
NLRP4	147945	broad.mit.edu	37	19	56369066	56369066	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:56369066G>A	uc002qmd.3	+	3	729	c.307G>A	c.(307-309)GCA>ACA	p.A103T	NLRP4_uc002qmf.2_Missense_Mutation_p.A28T|NLRP4_uc010etf.2_5'UTR	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	103							ATP binding			ovary(5)|skin(4)|lung(3)|upper_aerodigestive_tract(1)|kidney(1)|pancreas(1)	15		Colorectal(82;0.0002)|Ovarian(87;0.221)		GBM - Glioblastoma multiforme(193;0.0606)		TCAAGCTCACGCAAAGCAGAA	0.428													9	83					0	0	0.004482	0	0	
NLRP4	147945	broad.mit.edu	37	19	56382267	56382267	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:56382267G>A	uc002qmd.3	+	7	2851	c.2429G>A	c.(2428-2430)CGC>CAC	p.R810H	NLRP4_uc002qmf.2_Missense_Mutation_p.R735H|NLRP4_uc010etf.2_Missense_Mutation_p.R585H	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	810	LRR 5.						ATP binding			ovary(5)|skin(4)|lung(3)|upper_aerodigestive_tract(1)|kidney(1)|pancreas(1)	15		Colorectal(82;0.0002)|Ovarian(87;0.221)		GBM - Glioblastoma multiforme(193;0.0606)		AAGAGCGTGCGCTATCTAGAC	0.517													17	83					0	0	0.010504	0	0	
ZNF787	126208	broad.mit.edu	37	19	56600116	56600116	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:56600116C>T	uc010eth.1	-	3	544	c.425G>A	c.(424-426)CGC>CAC	p.R142H		NM_001002836	NP_001002836	Q6DD87	ZN787_HUMAN	zinc finger protein 787	142	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		Colorectal(82;3.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0559)		CGTGTGGATGCGCTGGTGCTG	0.677													8	28					0	0	0.008291	0	0	
ZNF470	388566	broad.mit.edu	37	19	57081729	57081729	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:57081729G>A	uc002qnl.3	+	3	725	c.49G>A	c.(49-51)GCC>ACC	p.A17T	uc002qnk.1_5'Flank|ZNF470_uc010etn.2_RNA	NM_001001668	NP_001001668	Q6ECI4	ZN470_HUMAN	zinc finger protein 470	17					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Colorectal(82;5.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0294)		ACTTTGTAAAGCCATGTCCCT	0.408													12	44					0	0	0.002450	0	0	
ZNF71	58491	broad.mit.edu	37	19	57133474	57133474	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:57133474C>T	uc002qnm.3	+	3	1057	c.819C>T	c.(817-819)CCC>CCT	p.P273P		NM_021216	NP_067039	Q9NQZ8	ZNF71_HUMAN	zinc finger protein 71	273	C2H2-type 6.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(193;0.062)|Lung(386;0.0681)|LUSC - Lung squamous cell carcinoma(496;0.18)		ACGTGTGCCCCGAGTGCGGGC	0.672													14	24					0	0	0.008871	0	0	
ZNF835	90485	broad.mit.edu	37	19	57175802	57175802	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:57175802G>A	uc010ygo.1	-	2	831	c.831C>T	c.(829-831)TGC>TGT	p.C277C	ZNF835_uc010ygn.1_Silent_p.C255C	NM_001005850	NP_001005850			zinc finger protein 835											pancreas(3)|skin(1)	4						AGGCCTTGGCGCACGCGGAGC	0.682													6	28					0	0	0.008291	0	0	
ZNF835	90485	broad.mit.edu	37	19	57176545	57176545	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:57176545C>T	uc010ygo.1	-	2	88	c.88G>A	c.(88-90)GCC>ACC	p.A30T	ZNF835_uc010ygn.1_Missense_Mutation_p.A8T	NM_001005850	NP_001005850			zinc finger protein 835											pancreas(3)|skin(1)	4						CCCTGGAGGGCGACGCTCAAG	0.517													10	43					0	0	0.001368	0	0	
PEG3	5178	broad.mit.edu	37	19	57327787	57327787	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:57327787G>A	uc002qnu.2	-	7	2374	c.2023C>T	c.(2023-2025)CGT>TGT	p.R675C	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.R646C|PEG3_uc002qnv.2_Missense_Mutation_p.R675C|PEG3_uc002qnw.2_Missense_Mutation_p.R551C|PEG3_uc002qnx.2_Missense_Mutation_p.R549C|PEG3_uc010etr.2_Missense_Mutation_p.R675C	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	675					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		GTTTTCTGACGCCTTTTAAGG	0.428													38	91					0	0	0.007835	0	0	
ZNF547	284306	broad.mit.edu	37	19	57889141	57889141	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:57889141G>T	uc002qol.2	+	4	990	c.797G>T	c.(796-798)AGG>ATG	p.R266M	ZNF547_uc002qpm.3_Missense_Mutation_p.R192M|ZNF547_uc010ygx.1_Missense_Mutation_p.R266M	NM_173631	NP_775902	Q8IVP9	ZN547_HUMAN	zinc finger protein 547	266					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		ACTGGAAAGAGGCCTTATGGT	0.423													7	105					5.18039e-06	5.47617e-06	0.003080	1	0	
ZNF773	374928	broad.mit.edu	37	19	58018779	58018779	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:58018779G>A	uc002qox.2	+	4	1456	c.1316G>A	c.(1315-1317)GGA>GAA	p.G439E	ZNF547_uc002qpm.3_Intron|ZNF773_uc002qoy.2_Missense_Mutation_p.G438E|ZNF773_uc002qoz.2_Intron	NM_198542	NP_940944	Q6PK81	ZN773_HUMAN	zinc finger protein 773	439					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0254)		ATTCACACTGGAGAAATACAA	0.413													13	40					0	0	0.002450	0	0	
ZNF550	162972	broad.mit.edu	37	19	58059032	58059032	+	Missense_Mutation	SNP	C	T	T	rs78685508	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:58059032C>T	uc002qpe.1	-	2	457	c.457G>A	c.(457-459)GCC>ACC	p.A153T	ZNF547_uc002qpm.3_Intron|ZNF549_uc010eud.1_Intron|ZNF550_uc002qpc.2_RNA|ZNF550_uc010eue.1_RNA|ZNF550_uc002qpd.2_RNA	NM_001039654	NP_001034743	Q7Z398	ZN550_HUMAN	zinc finger protein 550	194					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		TGAATCAAGGCGTCTTTCCCT	0.488													9	190					0	0	0.004482	0	0	
ZNF550	162972	broad.mit.edu	37	19	58059290	58059290	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:58059290G>A	uc002qpe.1	-	2	199	c.199C>T	c.(199-201)CGG>TGG	p.R67W	ZNF547_uc002qpm.3_Intron|ZNF549_uc010eud.1_Intron|ZNF550_uc002qpc.2_RNA|ZNF550_uc010eue.1_RNA|ZNF550_uc002qpd.2_RNA	NM_001039654	NP_001034743	Q7Z398	ZN550_HUMAN	zinc finger protein 550	108					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		AGGCTTCCCCGGAGAAAGGCC	0.517													26	92					0	0	0.002096	0	0	
ZNF416	55659	broad.mit.edu	37	19	58084160	58084160	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:58084160C>T	uc002qpf.2	-	4	1283	c.1112G>A	c.(1111-1113)CGA>CAA	p.R371Q	ZNF547_uc002qpm.3_Intron	NM_017879	NP_060349	Q9BWM5	ZN416_HUMAN	zinc finger protein 416	371	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0259)		TCTCTGGTGTCGAACAAGAGT	0.428													9	90					0	0	0.004482	0	0	
ZNF551	90233	broad.mit.edu	37	19	58199015	58199015	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:58199015C>T	uc002qpw.3	+	3	1547	c.1324C>T	c.(1324-1326)CAA>TAA	p.Q442*	ZNF551_uc002qpv.3_Nonsense_Mutation_p.Q385*|ZNF776_uc002qpx.2_Intron	NM_138347	NP_612356	Q7Z340	ZN551_HUMAN	zinc finger protein 551	458	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		ATCCTTTAGACAATTCTCTAA	0.418													19	93					0	0	0.007413	0	0	
ZNF329	79673	broad.mit.edu	37	19	58639657	58639657	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:58639657C>T	uc002qrn.2	-	4	1451	c.1214G>A	c.(1213-1215)GGC>GAC	p.G405D	ZNF329_uc010euk.1_RNA|ZNF329_uc002qro.1_RNA|ZNF329_uc002qrp.1_RNA	NM_024620	NP_078896	Q86UD4	ZN329_HUMAN	zinc finger protein 329	405	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.029)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.017)|Lung(386;0.216)		GAAAGTCTTGCCACATTCTTT	0.463													11	56					0	0	0.001855	0	0	
ZNF329	79673	broad.mit.edu	37	19	58640244	58640244	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:58640244G>A	uc002qrn.2	-	4	864	c.627C>T	c.(625-627)GGC>GGT	p.G209G	ZNF329_uc010euk.1_RNA|ZNF329_uc002qro.1_RNA|ZNF329_uc002qrp.1_RNA	NM_024620	NP_078896	Q86UD4	ZN329_HUMAN	zinc finger protein 329	209	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.029)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.017)|Lung(386;0.216)		TGAAGCATTTGCCACATTCAG	0.403													5	141					0	0	0.003080	0	0	
ZNF274	10782	broad.mit.edu	37	19	58724308	58724308	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:58724308C>T	uc002qrq.1	+	10	2220	c.1761C>T	c.(1759-1761)GGC>GGT	p.G587G	ZNF274_uc002qrr.1_Silent_p.G555G|ZNF274_uc002qrs.1_Silent_p.G482G|ZNF274_uc010eum.1_Silent_p.G346G	NM_133502	NP_598009	Q96GC6	ZN274_HUMAN	zinc finger protein 274 isoform c	587					viral reproduction	centrosome|nucleolus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Ovarian(87;0.0443)|Breast(46;0.0889)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)|Lung(386;0.215)		CTCACACTGGCGCTAAGCCCT	0.547													7	64					0	0	0.001984	0	0	
TPO	7173	broad.mit.edu	37	2	1497645	1497645	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:1497645G>A	uc002qww.2	+	11	1931	c.1840G>A	c.(1840-1842)GCC>ACC	p.A614T	TPO_uc010ewj.2_RNA|TPO_uc002qwu.2_Missense_Mutation_p.A557T|TPO_uc002qwr.2_Missense_Mutation_p.A614T|TPO_uc002qwx.2_Missense_Mutation_p.A557T|TPO_uc010yio.1_Missense_Mutation_p.A441T|TPO_uc010yip.1_Missense_Mutation_p.A614T|TPO_uc002qwy.1_5'UTR|TPO_uc002qwz.2_RNA	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	614	Extracellular (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	CACAGCCATCGCCAGCAGGAG	0.602													10	41					0	0	0.001855	0	0	
TPO	7173	broad.mit.edu	37	2	1507808	1507808	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:1507808C>T	uc002qww.2	+	14	2566	c.2475C>T	c.(2473-2475)TGC>TGT	p.C825C	TPO_uc010ewj.2_RNA|TPO_uc002qwu.2_Silent_p.C768C|TPO_uc002qwr.2_Silent_p.C825C|TPO_uc002qwx.2_Silent_p.C768C|TPO_uc010yio.1_Silent_p.C652C|TPO_uc010yip.1_Intron|TPO_uc002qwy.1_Intron|TPO_uc002qwz.2_Intron	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	825	Extracellular (Potential).|EGF-like; calcium-binding (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	AGTGTCTCTGCGCGGACCCCT	0.577													9	29					0	0	0.006214	0	0	
PXDN	7837	broad.mit.edu	37	2	1652167	1652167	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:1652167G>A	uc002qxa.2	-	17	3449	c.3385C>T	c.(3385-3387)CGT>TGT	p.R1129C		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	1129					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		GAGGGCACACGCATTTTCCCC	0.627													4	16					0	0	0.000602	0	0	
MYT1L	23040	broad.mit.edu	37	2	1855433	1855433	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:1855433G>A	uc002qxe.2	-	19	3581	c.2754C>T	c.(2752-2754)GGC>GGT	p.G918G	MYT1L_uc002qxd.2_Silent_p.G916G	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	918	C2HC-type 4.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		AAGCATAATTGCCGGTGATAT	0.423													27	95					0	0	0.002836	0	0	
TSSC1	7260	broad.mit.edu	37	2	3197897	3197897	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:3197897G>A	uc002qxj.2	-	7	887	c.694C>T	c.(694-696)CGG>TGG	p.R232W	TSSC1_uc002qxi.2_RNA	NM_003310	NP_003301	Q53HC9	TSSC1_HUMAN	tumor suppressing subtransferable candidate 1	232	WD 3.						protein binding				0	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)	all_cancers(51;0.212)		OV - Ovarian serous cystadenocarcinoma(76;0.00877)|Epithelial(75;0.0283)|all cancers(51;0.0464)		TCAAGGTCCCGCACCAGCTGT	0.502													6	87					0	0	0.001984	0	0	
TTC15	51112	broad.mit.edu	37	2	3469366	3469366	+	Splice_Site	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:3469366A>C	uc002qxm.1	+	9	1884	c.1678_splice	c.e9-2	p.D560_splice	TTC15_uc002qxn.1_Splice_Site_p.D560_splice|TTC15_uc010ewm.1_Splice_Site_p.D566_splice	NM_016030	NP_057114	Q8WVT3	TTC15_HUMAN	tetratricopeptide repeat domain 15								binding			ovary(2)|breast(1)|pancreas(1)	4	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)	all_cancers(51;0.214)		OV - Ovarian serous cystadenocarcinoma(76;0.0402)|Epithelial(75;0.0986)|all cancers(51;0.149)		TTCTTCCCACAGGATTATGTG	0.522													4	68					0	0	0.001168	0	0	
TTC15	51112	broad.mit.edu	37	2	3482617	3482617	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:3482617C>T	uc002qxm.1	+	11	2084	c.1878C>T	c.(1876-1878)AGC>AGT	p.S626S	TTC15_uc002qxn.1_Silent_p.S626S|TTC15_uc010ewm.1_Silent_p.S632S	NM_016030	NP_057114	Q8WVT3	TTC15_HUMAN	tetratricopeptide repeat domain 15	626	TPR 3.						binding			ovary(2)|breast(1)|pancreas(1)	4	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)	all_cancers(51;0.214)		OV - Ovarian serous cystadenocarcinoma(76;0.0402)|Epithelial(75;0.0986)|all cancers(51;0.149)		TGTGTTACAGCGCGTTCCTTC	0.547													9	34					0	0	0.006214	0	0	
KIDINS220	57498	broad.mit.edu	37	2	8871355	8871355	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:8871355G>A	uc002qzc.2	-	30	4993	c.4811C>T	c.(4810-4812)GCG>GTG	p.A1604V	KIDINS220_uc010yiv.1_Intron|KIDINS220_uc002qzd.2_Missense_Mutation_p.A1505V|KIDINS220_uc002qzb.2_Missense_Mutation_p.A458V	NM_020738	NP_065789	Q9ULH0	KDIS_HUMAN	kinase D-interacting substrate of 220 kDa	1604	Cytoplasmic (Potential).				activation of MAPKK activity|nerve growth factor receptor signaling pathway	cytosol|integral to membrane				ovary(3)|central_nervous_system(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					GGAGTCATCCGCCACTTCATT	0.488													14	26					0	0	0.003163	0	0	
KIDINS220	57498	broad.mit.edu	37	2	8890383	8890383	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:8890383C>T	uc002qzc.2	-	24	3455	c.3273G>A	c.(3271-3273)GCG>GCA	p.A1091A	KIDINS220_uc010yiv.1_Silent_p.A857A|KIDINS220_uc002qzd.2_Silent_p.A1049A|KIDINS220_uc010yiw.1_Silent_p.A1092A|KIDINS220_uc002qzb.2_5'UTR|KIDINS220_uc002qze.2_Silent_p.A96A	NM_020738	NP_065789	Q9ULH0	KDIS_HUMAN	kinase D-interacting substrate of 220 kDa	1091	Mediates interaction with CRKL (By similarity).|Cytoplasmic (Potential).				activation of MAPKK activity|nerve growth factor receptor signaling pathway	cytosol|integral to membrane				ovary(3)|central_nervous_system(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					ACCCTGATGGCGCCCTAGGAG	0.577													14	43					0	0	0.002450	0	0	
ASAP2	8853	broad.mit.edu	37	2	9437489	9437489	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:9437489T>C	uc002qzh.2	+	3	600	c.260T>C	c.(259-261)GTA>GCA	p.V87A	ASAP2_uc002qzi.2_Missense_Mutation_p.V87A	NM_003887	NP_003878	O43150	ASAP2_HUMAN	ArfGAP with SH3 domain, ankyrin repeat and PH	87					regulation of ARF GTPase activity	Golgi cisterna membrane|plasma membrane	ARF GTPase activator activity|protein binding|zinc ion binding				0						GGCAACTGTGTATGCAGAGAT	0.488													5	64					0	0	0.001168	0	0	
ITGB1BP1	9270	broad.mit.edu	37	2	9548269	9548269	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:9548269G>A	uc002qzj.2	-	5	531	c.354C>T	c.(352-354)GGC>GGT	p.G118G	ITGB1BP1_uc002qzk.2_Silent_p.G118G|ITGB1BP1_uc002qzl.2_RNA|ITGB1BP1_uc002qzm.2_RNA|ITGB1BP1_uc010yiy.1_Silent_p.G74G|ITGB1BP1_uc002qzn.1_Silent_p.G118G	NM_004763	NP_004754	O14713	ITBP1_HUMAN	integrin cytoplasmic domain-associated protein 1	118	PID.				cell migration|cell-matrix adhesion|intracellular protein kinase cascade	cytosol|lamellipodium|membrane|ruffle	protein binding|protein binding				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.23)		ATACTTTTATGCCATACTTGG	0.308													10	55					0	0	0.001368	0	0	
CPSF3	51692	broad.mit.edu	37	2	9572738	9572738	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:9572738C>T	uc002qzo.1	+	5	475	c.440C>T	c.(439-441)GCG>GTG	p.A147V	CPSF3_uc010ewx.1_Missense_Mutation_p.A147V|CPSF3_uc002qzp.1_Missense_Mutation_p.A110V	NM_016207	NP_057291	Q9UKF6	CPSF3_HUMAN	cleavage and polyadenylation specific factor 3,	147					histone mRNA 3'-end processing|mRNA cleavage|mRNA export from nucleus|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex|ribonucleoprotein complex	5'-3' exonuclease activity|endoribonuclease activity|metal ion binding|protein binding|RNA binding			breast(2)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)	all_cancers(51;2.39e-25)|all_epithelial(98;8.75e-19)|Lung NSC(108;2.38e-06)|Ovarian(717;0.0308)		all cancers(51;2.2e-40)|Epithelial(75;6.71e-35)|OV - Ovarian serous cystadenocarcinoma(76;4.35e-21)|STAD - Stomach adenocarcinoma(1183;0.00644)		AAGGAAGTTGCGGGAATCAAG	0.463													4	47					0	0	0.001168	0	0	
IAH1	285148	broad.mit.edu	37	2	9624576	9624576	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:9624576G>A	uc002qzr.2	+	5	487	c.461G>A	c.(460-462)CGC>CAC	p.R154H	IAH1_uc002qzs.2_Missense_Mutation_p.R41H|IAH1_uc002qzt.2_Missense_Mutation_p.R41H|IAH1_uc010yiz.1_RNA	NM_001039613	NP_001034702	Q2TAA2	IAH1_HUMAN	isoamyl acetate-hydrolyzing esterase 1 homolog	154					lipid catabolic process		hydrolase activity, acting on ester bonds				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					AAACTAAATCGCCTGAACTCT	0.483													19	72					0	0	0.001882	0	0	
ADAM17	6868	broad.mit.edu	37	2	9634874	9634874	+	Silent	SNP	C	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:9634874C>G	uc002qzu.2	-	15	1989	c.1806G>C	c.(1804-1806)GTG>GTC	p.V602V	IAH1_uc010yiz.1_RNA|ADAM17_uc010ewy.2_Silent_p.V602V|ADAM17_uc010ewz.2_Intron	NM_003183	NP_003174	P78536	ADA17_HUMAN	a disintegrin and metalloprotease domain 17	602	Extracellular (Potential).|Cys-rich.				B cell differentiation|cell adhesion mediated by integrin|epidermal growth factor receptor signaling pathway|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|germinal center formation|membrane protein intracellular domain proteolysis|negative regulation of interleukin-8 production|nerve growth factor receptor signaling pathway|Notch signaling pathway|PMA-inducible membrane protein ectodomain proteolysis|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of chemokine production|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of protein phosphorylation|positive regulation of T cell chemotaxis|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of mast cell apoptosis|response to drug|response to high density lipoprotein particle stimulus|response to hypoxia|response to lipopolysaccharide|spleen development|T cell differentiation in thymus|wound healing, spreading of epidermal cells	actin cytoskeleton|apical plasma membrane|cell surface|cytoplasm|integral to plasma membrane|membrane raft	integrin binding|interleukin-6 receptor binding|metalloendopeptidase activity|PDZ domain binding|SH3 domain binding|zinc ion binding			lung(1)|kidney(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.225)		CCCTGCAGCACACCTTGCAGG	0.502													4	75					0	0	0.000602	0	0	
YWHAQ	10971	broad.mit.edu	37	2	9728312	9728312	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:9728312G>A	uc002qzw.2	-	3	728	c.564C>T	c.(562-564)GCC>GCT	p.A188A	YWHAQ_uc002qzx.2_Silent_p.A188A	NM_006826	NP_006817	P27348	1433T_HUMAN	tyrosine 3/tryptophan 5 -monooxygenase	188					negative regulation of transcription, DNA-dependent	centrosome|nucleus	protein N-terminus binding			breast(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.241)		CCAGCGTGCAGGCAAGCTCTG	0.398													17	55					0	0	0.001882	0	0	
TAF1B	9014	broad.mit.edu	37	2	10050891	10050891	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:10050891G>A	uc002qzz.2	+	10	1082	c.982G>A	c.(982-984)GTG>ATG	p.V328M	TAF1B_uc010exc.2_Missense_Mutation_p.V328M|TAF1B_uc002qzy.3_Missense_Mutation_p.V328M|TAF1B_uc010yja.1_Missense_Mutation_p.V73M|TAF1B_uc010exd.2_Missense_Mutation_p.V73M	NM_005680	NP_005671	Q53T94	TAF1B_HUMAN	TBP-associated factor 1B	328					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|breast(1)|pancreas(1)	3	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					AACTTGCCACGTGGTAAAAAT	0.343													19	60					0	0	0.001882	0	0	
ODC1	4953	broad.mit.edu	37	2	10581770	10581770	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:10581770C>T	uc010exg.1	-	11	1540	c.1106G>A	c.(1105-1107)CGC>CAC	p.R369H	ODC1_uc002ran.1_Missense_Mutation_p.R55H|ODC1_uc002rao.1_Missense_Mutation_p.R369H|ODC1_uc010yjd.1_Missense_Mutation_p.R239H	NM_002539	NP_002530	P11926	DCOR_HUMAN	ornithine decarboxylase 1	369					polyamine biosynthetic process|regulation of cellular amino acid metabolic process|response to virus	cytosol	ornithine decarboxylase activity|protein binding			ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.11)|OV - Ovarian serous cystadenocarcinoma(76;0.161)	Pyridoxal Phosphate(DB00114)|Spermine(DB00127)	CAGGTCACAGCGCTCAACAAT	0.478													26	52					0	0	0.004656	0	0	
KCNF1	3754	broad.mit.edu	37	2	11053250	11053250	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:11053250T>C	uc002rax.2	+	1	1188	c.698T>C	c.(697-699)TTC>TCC	p.F233S		NM_002236	NP_002227	Q9H3M0	KCNF1_HUMAN	potassium voltage-gated channel, subfamily F,	233	Helical; Name=Segment S2; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.128)		ATTGGCTGGTTCACCCTGGAG	0.632													6	18					0	0	0.003080	0	0	
KCNF1	3754	broad.mit.edu	37	2	11053818	11053818	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:11053818G>A	uc002rax.2	+	1	1756	c.1266G>A	c.(1264-1266)GCG>GCA	p.A422A		NM_002236	NP_002227	Q9H3M0	KCNF1_HUMAN	potassium voltage-gated channel, subfamily F,	422	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.128)		TGGAGACCGCGGCCAAGCACG	0.617													5	10					0	0	0.001168	0	0	
LPIN1	23175	broad.mit.edu	37	2	11924028	11924028	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:11924028G>A	uc010yjn.1	+	9	1504	c.1230G>A	c.(1228-1230)GCG>GCA	p.A410A	LPIN1_uc010yjm.1_Silent_p.A495A|LPIN1_uc002rbt.2_Silent_p.A410A|LPIN1_uc002rbs.2_Silent_p.A446A	NM_145693	NP_663731	Q14693	LPIN1_HUMAN	lipin 1	410					fatty acid catabolic process|transcription, DNA-dependent|triglyceride biosynthetic process|triglyceride mobilization	cytosol|endoplasmic reticulum membrane	phosphatidate phosphatase activity			ovary(2)|large_intestine(1)|skin(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.11)|OV - Ovarian serous cystadenocarcinoma(76;0.173)		CTGAAGTGGCGGCCCTGTATT	0.428													41	134					0	0	0.003610	0	0	
NBAS	51594	broad.mit.edu	37	2	15696925	15696925	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:15696925C>T	uc002rcc.1	-	3	217	c.191G>A	c.(190-192)CGC>CAC	p.R64H	NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	64										ovary(2)|liver(1)|skin(1)	4						GATGTATTGGCGTAAAAATAA	0.279													15	70					0	0	0.008871	0	0	
NT5C1B	93034	broad.mit.edu	37	2	18764161	18764161	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:18764161G>A	uc002rcz.2	-	7	1278	c.1174C>T	c.(1174-1176)CGG>TGG	p.R392W	NT5C1B_uc002rcy.2_Missense_Mutation_p.R392W|NT5C1B_uc010exr.2_Missense_Mutation_p.R334W|NT5C1B_uc010yju.1_Missense_Mutation_p.R332W|NT5C1B_uc002rda.2_Missense_Mutation_p.R332W|NT5C1B_uc010yjv.1_Missense_Mutation_p.R409W|NT5C1B_uc010yjw.1_Missense_Mutation_p.R375W|NT5C1B_uc010exs.2_Missense_Mutation_p.R394W	NM_001002006	NP_001002006	Q96P26	5NT1B_HUMAN	5' nucleotidase, cytosolic IB isoform 1	392					purine base metabolic process|purine nucleotide catabolic process	cytosol	5'-nucleotidase activity|magnesium ion binding|nucleotide binding			skin(2)|ovary(1)	3	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.177)	Ovarian(717;0.208)				TTTATAAGCCGCACTCCCACT	0.408													16	48					0	0	0.008871	0	0	
OSR1	130497	broad.mit.edu	37	2	19552979	19552979	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:19552979C>T	uc002rdc.2	-	2	891	c.588G>A	c.(586-588)ACG>ACA	p.T196T		NM_145260	NP_660303	Q8TAX0	OSR1_HUMAN	odd-skipped related 1	196	C2H2-type 1.				chondrocyte differentiation|embryonic digit morphogenesis|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic leg joint morphogenesis|embryonic skeletal joint morphogenesis|heart development|mesangial cell development|mesonephric duct morphogenesis|metanephric cap mesenchymal cell proliferation involved in metanephros development|metanephric glomerulus vasculature development|metanephric interstitial cell development|metanephric mesenchymal cell differentiation|metanephric nephron tubule development|metanephric smooth muscle tissue development|middle ear morphogenesis|negative regulation of apoptosis|negative regulation of nephron tubule epithelial cell differentiation|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|pattern specification involved in metanephros development|positive regulation of bone mineralization|positive regulation of epithelial cell proliferation|positive regulation of gastrulation|positive regulation of transcription from RNA polymerase II promoter|pronephros development|renal vesicle progenitor cell differentiation|specification of anterior mesonephric tubule identity|specification of posterior mesonephric tubule identity|stem cell differentiation|transcription, DNA-dependent|ureter urothelium development|ureteric bud development	nucleolus	nucleic acid binding|zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.197)	Acute lymphoblastic leukemia(84;0.221)				CGTCGGTGTGCGTCCGCTCAT	0.592													15	32					0	0	0.006122	0	0	
WDR35	57539	broad.mit.edu	37	2	20113444	20113444	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:20113444C>T	uc002rdi.2	-	28	3529	c.3421G>A	c.(3421-3423)GTT>ATT	p.V1141I	WDR35_uc002rdj.2_Missense_Mutation_p.V1130I|WDR35_uc010ext.2_RNA|WDR35_uc002rdh.2_Silent_p.A533A	NM_001006657	NP_001006658	Q9P2L0	WDR35_HUMAN	WD repeat domain 35 isoform 1	1141										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CCTGTGGCAACGCATGTTGGC	0.408													8	96					0	0	0.006214	0	0	
WDR35	57539	broad.mit.edu	37	2	20136078	20136078	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:20136078T>C	uc002rdi.2	-	21	2457	c.2349A>G	c.(2347-2349)GTA>GTG	p.V783V	WDR35_uc002rdj.2_Silent_p.V772V|WDR35_uc010ext.2_RNA|WDR35_uc002rdh.2_Silent_p.V348V|WDR35_uc002rdk.3_Silent_p.V348V	NM_001006657	NP_001006658	Q9P2L0	WDR35_HUMAN	WD repeat domain 35 isoform 1	783										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGAGCTGGAGTACTCTAAACC	0.403													5	66					0	0	0.000602	0	0	
ATAD2B	54454	broad.mit.edu	37	2	24033274	24033274	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:24033274T>C	uc002rek.3	-	18	2660	c.2366A>G	c.(2365-2367)CAC>CGC	p.H789R	ATAD2B_uc010yki.1_RNA|ATAD2B_uc002rei.3_Missense_Mutation_p.H34R|ATAD2B_uc002rej.3_5'UTR	NM_017552	NP_060022	Q9ULI0	ATD2B_HUMAN	ATPase family, AAA domain containing 2B	789							ATP binding|nucleoside-triphosphatase activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TTCTAGAGTGTGCAAAAGTGC	0.473													24	66					0	0	0.004656	0	0	
ATAD2B	54454	broad.mit.edu	37	2	24033337	24033337	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:24033337C>T	uc002rek.3	-	18	2597	c.2303G>A	c.(2302-2304)CGC>CAC	p.R768H	ATAD2B_uc010yki.1_RNA|ATAD2B_uc002rei.3_Missense_Mutation_p.R13H|ATAD2B_uc002rej.3_5'UTR	NM_017552	NP_060022	Q9ULI0	ATD2B_HUMAN	ATPase family, AAA domain containing 2B	768							ATP binding|nucleoside-triphosphatase activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GAGCAATAAGCGTGGCCTGTA	0.413													15	64					0	0	0.004007	0	0	
ITSN2	50618	broad.mit.edu	37	2	24484596	24484596	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:24484596C>T	uc002rfe.2	-	21	2629	c.2371G>A	c.(2371-2373)GTA>ATA	p.V791I	ITSN2_uc002rff.2_Missense_Mutation_p.V764I|ITSN2_uc002rfg.2_Missense_Mutation_p.V791I	NM_006277	NP_006268	Q9NZM3	ITSN2_HUMAN	intersectin 2 isoform 1	791	SH3 1.				endocytosis|regulation of Rho protein signal transduction	cytoplasm	calcium ion binding|Rho guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			kidney(2)|ovary(1)|central_nervous_system(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGTTCTCCTACGGTTTTTTCA	0.333													12	36					0	0	0.001368	0	0	
POMC	5443	broad.mit.edu	37	2	25383970	25383970	+	Missense_Mutation	SNP	C	T	T	rs145696771		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:25383970C>T	uc002rfy.1	-	4	1047	c.784G>A	c.(784-786)GCC>ACC	p.A262T	POMC_uc002rfz.1_Missense_Mutation_p.A262T|POMC_uc002rga.1_Missense_Mutation_p.A262T	NM_001035256	NP_001030333	P01189	COLI_HUMAN	proopiomelanocortin preproprotein	262					cell-cell signaling|cellular nitrogen compound metabolic process|cellular pigmentation|generation of precursor metabolites and energy|hormone biosynthetic process|negative regulation of tumor necrosis factor production|neuropeptide signaling pathway|peptide hormone processing|positive regulation of transcription from RNA polymerase II promoter|regulation of appetite|regulation of blood pressure	extracellular space|stored secretory granule	hormone activity|type 1 melanocortin receptor binding|type 3 melanocortin receptor binding|type 4 melanocortin receptor binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Hydrocortisone(DB00741)|Loperamide(DB00836)|Trilostane(DB01108)	TTCTTGTAGGCGTTCTTGATG	0.657													4	28					0	0	0.000602	0	0	
POMC	5443	broad.mit.edu	37	2	25384011	25384011	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:25384011G>A	uc002rfy.1	-	4	1006	c.743C>T	c.(742-744)ACG>ATG	p.T248M	POMC_uc002rfz.1_Missense_Mutation_p.T248M|POMC_uc002rga.1_Missense_Mutation_p.T248M	NM_001035256	NP_001030333	P01189	COLI_HUMAN	proopiomelanocortin preproprotein	248					cell-cell signaling|cellular nitrogen compound metabolic process|cellular pigmentation|generation of precursor metabolites and energy|hormone biosynthetic process|negative regulation of tumor necrosis factor production|neuropeptide signaling pathway|peptide hormone processing|positive regulation of transcription from RNA polymerase II promoter|regulation of appetite|regulation of blood pressure	extracellular space|stored secretory granule	hormone activity|type 1 melanocortin receptor binding|type 3 melanocortin receptor binding|type 4 melanocortin receptor binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Hydrocortisone(DB00741)|Loperamide(DB00836)|Trilostane(DB01108)	CACCAGGGGCGTCTGGCTCTT	0.637													7	20					0	0	0.001984	0	0	
HADHA	3030	broad.mit.edu	37	2	26414236	26414236	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:26414236G>A	uc002rgy.2	-	20	2305	c.2175C>T	c.(2173-2175)GGC>GGT	p.G725G	HADHA_uc010yks.1_Silent_p.G638G	NM_000182	NP_000173	P40939	ECHA_HUMAN	mitochondrial trifunctional protein, alpha	725					fatty acid beta-oxidation	fatty acid beta-oxidation multienzyme complex|mitochondrial nucleoid|nucleolus	3-hydroxyacyl-CoA dehydrogenase activity|acetyl-CoA C-acetyltransferase activity|coenzyme binding|enoyl-CoA hydratase activity|long-chain-3-hydroxyacyl-CoA dehydrogenase activity|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				NADH(DB00157)	TCTTCTGGGCGCCATACAGAT	0.517													18	57					0	0	0.007413	0	0	
HADHA	3030	broad.mit.edu	37	2	26437359	26437359	+	Nonsense_Mutation	SNP	G	A	A	rs137852775		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:26437359G>A	uc002rgy.2	-	9	1001	c.871C>T	c.(871-873)CGA>TGA	p.R291*	HADHA_uc010yks.1_Nonsense_Mutation_p.R204*|HADHA_uc010ykt.1_Nonsense_Mutation_p.R204*	NM_000182	NP_000173	P40939	ECHA_HUMAN	mitochondrial trifunctional protein, alpha	291					fatty acid beta-oxidation	fatty acid beta-oxidation multienzyme complex|mitochondrial nucleoid|nucleolus	3-hydroxyacyl-CoA dehydrogenase activity|acetyl-CoA C-acetyltransferase activity|coenzyme binding|enoyl-CoA hydratase activity|long-chain-3-hydroxyacyl-CoA dehydrogenase activity|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				NADH(DB00157)	GTCTGCTTTCGCACTTTTTCT	0.343													20	57					0	0	0.010504	0	0	
OTOF	9381	broad.mit.edu	37	2	26781400	26781400	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:26781400G>A	uc002rhk.2	-	1	167	c.40C>T	c.(40-42)CGG>TGG	p.R14W		NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	14	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CCCCTGCCCCGCAGCTCCGAG	0.652													5	16					0	0	0.000978	0	0	
DPYSL5	56896	broad.mit.edu	37	2	27121505	27121505	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:27121505C>T	uc002rhu.3	+	2	296	c.138C>T	c.(136-138)GGC>GGT	p.G46G	DPYSL5_uc002rhv.3_Silent_p.G46G	NM_020134	NP_064519	Q9BPU6	DPYL5_HUMAN	dihydropyrimidinase-like 5	46					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TGATCCCTGGCGGGGCCAAGG	0.592													17	57					0	0	0.004007	0	0	
PREB	10113	broad.mit.edu	37	2	27354540	27354540	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:27354540G>A	uc002rix.1	-	8	1412	c.1159C>T	c.(1159-1161)CGG>TGG	p.R387W	PREB_uc002riy.1_Missense_Mutation_p.R315W|PREB_uc002riz.1_RNA|PREB_uc002rja.1_Missense_Mutation_p.R329W	NM_013388	NP_037520	Q9HCU5	PREB_HUMAN	prolactin regulatory element binding protein	387	Cytoplasmic (Potential).				COPII vesicle coating|post-translational protein modification|protein N-linked glycosylation via asparagine|protein transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	endoplasmic reticulum membrane|integral to membrane|nucleus	DNA binding|guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AATGACTCACGCCGTGAGGGC	0.602													30	64					0	0	0.002096	0	0	
SLC5A6	8884	broad.mit.edu	37	2	27428236	27428236	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:27428236C>T	uc002rjd.2	-	7	1107	c.716G>A	c.(715-717)GGC>GAC	p.G239D	SLC5A6_uc010eyv.1_Missense_Mutation_p.G239D	NM_021095	NP_066918	Q9Y289	SC5A6_HUMAN	solute carrier family 5 (sodium-dependent	239					biotin metabolic process|pantothenate metabolic process	integral to plasma membrane|membrane fraction	sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Biotin(DB00121)|Lipoic Acid(DB00166)	AGAGATGCGGCCGTGCTGGGA	0.607													6	19					0	0	0.001168	0	0	
EIF2B4	8890	broad.mit.edu	37	2	27590383	27590383	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:27590383C>T	uc002rkb.2	-	9	969	c.826G>A	c.(826-828)GCC>ACC	p.A276T	EIF2B4_uc002rjz.2_Missense_Mutation_p.A296T|EIF2B4_uc002rka.2_Missense_Mutation_p.A261T|EIF2B4_uc002rkc.2_Missense_Mutation_p.A275T|EIF2B4_uc002rkd.2_Missense_Mutation_p.A70T|EIF2B4_uc002rke.2_Missense_Mutation_p.A245T|EIF2B4_uc002rkf.1_3'UTR|SNX17_uc010ylj.1_5'Flank	NM_001034116	NP_001029288	Q9UI10	EI2BD_HUMAN	eukaryotic translation initiation factor 2B,	276					myelination|negative regulation of translational initiation in response to stress|oligodendrocyte development|ovarian follicle development|response to glucose stimulus|response to heat|response to peptide hormone stimulus	cytosol|eukaryotic translation initiation factor 2B complex	translation initiation factor activity|translation initiation factor binding				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AACTTGATGGCGTTGTGCATG	0.483													28	53					0	0	0.003271	0	0	
IFT172	26160	broad.mit.edu	37	2	27684350	27684350	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:27684350T>C	uc002rku.2	-	22	2279	c.2228A>G	c.(2227-2229)TAC>TGC	p.Y743C		NM_015662	NP_056477	Q9UG01	IF172_HUMAN	selective LIM binding factor homolog	743					cilium assembly	cilium	binding			large_intestine(1)|ovary(1)	2	Acute lymphoblastic leukemia(172;0.155)					CCACTGGTAGTAACTACGACG	0.572													4	67					0	0	0.000602	0	0	
PPP1CB	5500	broad.mit.edu	37	2	29016803	29016803	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:29016803C>T	uc002rmg.2	+	8	979	c.819C>T	c.(817-819)GGC>GGT	p.G273G	PPP1CB_uc010ymj.1_Silent_p.G245G|PPP1CB_uc010yml.1_Silent_p.G245G|PPP1CB_uc002rmh.2_Silent_p.G273G|SPDYA_uc002rmi.2_5'UTR	NM_206876	NP_996759	P62140	PP1B_HUMAN	protein phosphatase 1, catalytic subunit, beta	273					cell cycle|cell division|glycogen metabolic process|triglyceride catabolic process	MLL5-L complex|nucleolus|PTW/PP1 phosphatase complex	metal ion binding|myosin phosphatase activity|myosin-light-chain-phosphatase activity|protein binding			skin(1)	1	Acute lymphoblastic leukemia(172;0.155)					ATTACTGTGGCGAGTTTGATA	0.348													15	60					0	0	0.004007	0	0	
FAM179A	165186	broad.mit.edu	37	2	29222106	29222106	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:29222106C>T	uc010ezl.2	+	4	550	c.199C>T	c.(199-201)CGT>TGT	p.R67C	FAM179A_uc010ymm.1_Missense_Mutation_p.R67C	NM_199280	NP_954974	Q6ZUX3	F179A_HUMAN	hypothetical protein LOC165186	67							binding			ovary(3)|skin(1)	4						ACAGCTCCTGCGTGGACTCGG	0.617													4	31					0	0	0.009096	0	0	
XDH	7498	broad.mit.edu	37	2	31567583	31567583	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:31567583T>C	uc002rnv.1	-	31	3450	c.3371A>G	c.(3370-3372)GAC>GGC	p.D1124G		NM_000379	NP_000370	P47989	XDH_HUMAN	xanthine dehydrogenase	1124					purine nucleotide catabolic process|xanthine catabolic process	cytosol|extracellular region|peroxisome	2 iron, 2 sulfur cluster binding|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|molybdopterin cofactor binding|protein homodimerization activity|xanthine dehydrogenase activity|xanthine oxidase activity			skin(4)|breast(2)|ovary(1)|central_nervous_system(1)	8	Acute lymphoblastic leukemia(172;0.155)				Allopurinol(DB00437)|Carvedilol(DB01136)|Daunorubicin(DB00694)|Deferoxamine(DB00746)|Desflurane(DB01189)|Menadione(DB00170)|Mercaptopurine(DB01033)|Methotrexate(DB00563)|NADH(DB00157)|Nitrofurazone(DB00336)|Papaverine(DB01113)|Procarbazine(DB01168)|Pyrazinamide(DB00339)|Rasburicase(DB00049)|Spermine(DB00127)|Trifluoperazine(DB00831)|Vitamin E(DB00163)	GCTCACTGTGTCCATGTAGGC	0.522													19	32					0	0	0.001882	0	0	
XDH	7498	broad.mit.edu	37	2	31610722	31610722	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:31610722C>T	uc002rnv.1	-	8	685	c.606G>A	c.(604-606)ACG>ACA	p.T202T		NM_000379	NP_000370	P47989	XDH_HUMAN	xanthine dehydrogenase	202					purine nucleotide catabolic process|xanthine catabolic process	cytosol|extracellular region|peroxisome	2 iron, 2 sulfur cluster binding|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|molybdopterin cofactor binding|protein homodimerization activity|xanthine dehydrogenase activity|xanthine oxidase activity			skin(4)|breast(2)|ovary(1)|central_nervous_system(1)	8	Acute lymphoblastic leukemia(172;0.155)				Allopurinol(DB00437)|Carvedilol(DB01136)|Daunorubicin(DB00694)|Deferoxamine(DB00746)|Desflurane(DB01189)|Menadione(DB00170)|Mercaptopurine(DB01033)|Methotrexate(DB00563)|NADH(DB00157)|Nitrofurazone(DB00336)|Papaverine(DB01113)|Procarbazine(DB01168)|Pyrazinamide(DB00339)|Rasburicase(DB00049)|Spermine(DB00127)|Trifluoperazine(DB00831)|Vitamin E(DB00163)	GATCCAGGGGCGTGAACTCCT	0.537													3	5					0	0	0.004672	0	0	
BIRC6	57448	broad.mit.edu	37	2	32678971	32678971	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:32678971T>C	uc010ezu.2	+	23	4848	c.4714T>C	c.(4714-4716)TCA>CCA	p.S1572P		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	1572					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					TACTTGTGTGTCAACTAGTGA	0.373													40	113					0	0	0.002852	0	0	
BIRC6	57448	broad.mit.edu	37	2	32750576	32750576	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:32750576G>A	uc010ezu.2	+	59	11935	c.11801G>A	c.(11800-11802)CGC>CAC	p.R3934H		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	3934					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					ACACCACCTCGCCCACCATCC	0.443													18	49					0	0	0.010504	0	0	
BIRC6	57448	broad.mit.edu	37	2	32756560	32756560	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:32756560G>A	uc010ezu.2	+	61	12367	c.12233G>A	c.(12232-12234)GGT>GAT	p.G4078D	MIR558_hsa-mir-558|MI0003564_5'Flank	NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	4078					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					GCAGGAATGGGTGGACTGGCT	0.408													5	46					0	0	0.001984	0	0	
TTC27	55622	broad.mit.edu	37	2	32958941	32958941	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:32958941G>A	uc002rom.2	+	11	1511	c.1280G>A	c.(1279-1281)CGC>CAC	p.R427H	TTC27_uc010ymx.1_Missense_Mutation_p.R377H|TTC27_uc002ron.2_RNA	NM_017735	NP_060205	Q6P3X3	TTC27_HUMAN	tetratricopeptide repeat domain 27	427							protein binding			central_nervous_system(1)	1						GTATTGGAACGCCTGAAGATT	0.348													26	88					0	0	0.002096	0	0	
LTBP1	4052	broad.mit.edu	37	2	33540323	33540323	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:33540323C>T	uc002ros.2	+	24	3720	c.3720C>T	c.(3718-3720)GGC>GGT	p.G1240G	LTBP1_uc002rot.2_Silent_p.G914G|LTBP1_uc002rou.2_Silent_p.G913G|LTBP1_uc002rov.2_Silent_p.G860G|LTBP1_uc010ymz.1_Silent_p.G913G|LTBP1_uc010yna.1_Silent_p.G860G|LTBP1_uc010ynb.1_Silent_p.G179G	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	1239	EGF-like 12; calcium-binding (Potential).				negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				CTGCAGATGGCCGTACGTGTG	0.448													4	74					0	0	0.009096	0	0	
MYADML	151325	broad.mit.edu	37	2	33952147	33952147	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:33952147G>A	uc002rpb.2	-	1	1138	c.696C>T	c.(694-696)GGC>GGT	p.G232G		NR_003143				RecName: Full=Myeloid-associated differentiation marker-like protein.;												0						ACACCAGGTCGCCCACATAGG	0.577													6	9					0	0	0.001168	0	0	
CRIM1	51232	broad.mit.edu	37	2	36704131	36704131	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:36704131C>T	uc002rpd.2	+	6	1130	c.1091C>T	c.(1090-1092)GCC>GTC	p.A364V		NM_016441	NP_057525	Q9NZV1	CRIM1_HUMAN	cysteine-rich motor neuron 1 precursor	364	VWFC 1.|Extracellular (Potential).				nervous system development|regulation of cell growth	extracellular region|integral to membrane|plasma membrane	insulin-like growth factor binding|insulin-like growth factor receptor activity|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3		all_hematologic(82;0.131)|Acute lymphoblastic leukemia(82;0.154)				GGGGGCGTTGCCATCTGCTTC	0.498													9	87					0	0	0.004482	0	0	
CRIM1	51232	broad.mit.edu	37	2	36739513	36739513	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:36739513G>A	uc002rpd.2	+	10	1795	c.1756G>A	c.(1756-1758)GGC>AGC	p.G586S		NM_016441	NP_057525	Q9NZV1	CRIM1_HUMAN	cysteine-rich motor neuron 1 precursor	586	Antistasin-like 4.|Extracellular (Potential).				nervous system development|regulation of cell growth	extracellular region|integral to membrane|plasma membrane	insulin-like growth factor binding|insulin-like growth factor receptor activity|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3		all_hematologic(82;0.131)|Acute lymphoblastic leukemia(82;0.154)				GGACAGTCACGGCTGTCTTAT	0.522													29	67					0	0	0.002445	0	0	
QPCT	25797	broad.mit.edu	37	2	37594392	37594392	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:37594392G>A	uc002rqg.2	+	4	686	c.564G>A	c.(562-564)AAG>AAA	p.K188K	QPCT_uc002rqh.2_Silent_p.K139K	NM_012413	NP_036545	Q16769	QPCT_HUMAN	glutaminyl-peptide cyclotransferase precursor	188					peptidyl-pyroglutamic acid biosynthetic process, using glutaminyl-peptide cyclotransferase|proteolysis	extracellular region	acyltransferase activity|glutaminyl-peptide cyclotransferase activity|peptidase activity|zinc ion binding			central_nervous_system(1)	1		Ovarian(717;0.051)|all_hematologic(82;0.21)				CAGACTCCAAGCCAGATTTGT	0.373													36	96					0	0	0.002852	0	0	
ABCG8	64241	broad.mit.edu	37	2	44101061	44101061	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:44101061C>T	uc002rtq.2	+	9	1437	c.1347C>T	c.(1345-1347)GCC>GCT	p.A449A	ABCG8_uc010yoa.1_Silent_p.A448A	NM_022437	NP_071882	Q9H221	ABCG8_HUMAN	ATP-binding cassette sub-family G member 8	449	Helical; Name=2; (Potential).|ABC transmembrane type-2.				cholesterol efflux|cholesterol homeostasis|excretion|lipid metabolic process|negative regulation of intestinal cholesterol absorption|negative regulation of intestinal phytosterol absorption	apical plasma membrane|integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity			skin(3)|ovary(1)	4		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				TGGATACAGCCGCCCTCTTGT	0.552													11	205					0	0	0.008291	0	0	
LRPPRC	10128	broad.mit.edu	37	2	44200831	44200831	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:44200831C>T	uc002rtr.2	-	11	1342	c.1284G>A	c.(1282-1284)AAG>AAA	p.K428K	LRPPRC_uc010yob.1_Silent_p.K328K	NM_133259	NP_573566	P42704	LPPRC_HUMAN	leucine-rich PPR motif-containing protein	428	PPR 7.				mitochondrion transport along microtubule|mRNA transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	condensed nuclear chromosome|cytoskeleton|mitochondrial nucleoid|nuclear inner membrane|nuclear outer membrane|nucleoplasm|perinuclear region of cytoplasm	beta-tubulin binding|microtubule binding|RNA binding			ovary(2)|skin(1)	3		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				CCTTCACAGCCTTCATTAAGG	0.383													8	139					0	0	0.004482	0	0	
PPM1B	5495	broad.mit.edu	37	2	44428873	44428873	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:44428873C>T	uc002rtt.2	+	2	963	c.535C>T	c.(535-537)CGA>TGA	p.R179*	PPM1B_uc002rts.2_Nonsense_Mutation_p.R179*|PPM1B_uc002rtu.2_Nonsense_Mutation_p.R179*|PPM1B_uc002rtv.2_Intron|PPM1B_uc002rtw.2_Nonsense_Mutation_p.R179*|PPM1B_uc002rtx.2_Nonsense_Mutation_p.R179*	NM_002706	NP_002697	O75688	PPM1B_HUMAN	protein phosphatase 1B isoform 1	179					protein dephosphorylation	protein serine/threonine phosphatase complex	magnesium ion binding|manganese ion binding|protein binding|protein serine/threonine phosphatase activity			kidney(1)|skin(1)	2		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				GGAAAAGGAGCGAATCCAAAA	0.448													27	71					0	0	0.008361	0	0	
STON1-GTF2A1L	286749	broad.mit.edu	37	2	48809431	48809431	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:48809431G>A	uc010yol.1	+	1	1706	c.1659G>A	c.(1657-1659)GCG>GCA	p.A553A	STON1_uc002rwo.3_Silent_p.A553A|STON1_uc010fbm.2_Silent_p.A553A|STON1-GTF2A1L_uc002rwp.1_Silent_p.A553A|STON1_uc002rwr.2_RNA|STON1_uc002rwq.2_Silent_p.A553A	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	553					endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			CCTCATTGGCGCAGAGGTCAT	0.478													30	69					0	0	0.002836	0	0	
STON1-GTF2A1L	286749	broad.mit.edu	37	2	48873848	48873848	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:48873848T>C	uc010yol.1	+	5	2663	c.2616T>C	c.(2614-2616)AGT>AGC	p.S872S	STON1-GTF2A1L_uc002rwp.1_Silent_p.S919S|GTF2A1L_uc002rws.1_Silent_p.S215S|GTF2A1L_uc010yom.1_Silent_p.S181S|GTF2A1L_uc002rwt.2_Silent_p.S215S	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	872					endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			ATGCCACCAGTGATATACTTG	0.413													26	72					0	0	0.005443	0	0	
FSHR	2492	broad.mit.edu	37	2	49189950	49189950	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:49189950G>A	uc002rww.2	-	10	2084	c.2010C>T	c.(2008-2010)GGC>GGT	p.G670G	FSHR_uc002rwx.2_Silent_p.G608G|FSHR_uc010fbn.2_Silent_p.G644G	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	670	Cytoplasmic (Potential).				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	AAGAGCAGTGGCCATTCCTTG	0.438									Gonadal_Dysgenesis_46_XX				6	65					0	0	0.001984	0	0	
NRXN1	9378	broad.mit.edu	37	2	50463984	50463984	+	Silent	SNP	G	A	A	rs147580960		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:50463984G>A	uc010fbp.2	-	2	1191	c.384C>T	c.(382-384)GCC>GCT	p.A128A	NRXN1_uc002rxb.3_Silent_p.A835A|NRXN1_uc010fbq.2_Silent_p.A1203A|NRXN1_uc002rxe.3_Silent_p.A1163A|NRXN1_uc002rxc.1_RNA	NM_138735	NP_620072	P58400	NRX1B_HUMAN	neurexin 1 isoform beta precursor	128	Extracellular (Potential).|Laminin G-like.				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			GCACCAATACGGCTTCTTTCT	0.443													4	50					0	0	0.009096	0	0	
NRXN1	9378	broad.mit.edu	37	2	50724782	50724782	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:50724782C>T	uc010fbq.2	-	14	4165	c.2688G>A	c.(2686-2688)CGG>CGA	p.R896R	NRXN1_uc002rxb.3_Silent_p.R528R|NRXN1_uc002rxe.3_Silent_p.R856R|NRXN1_uc002rxc.1_RNA	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			AAGAAAGATACCGTCGTTCTG	0.398													30	69					0	0	0.009535	0	0	
NRXN1	9378	broad.mit.edu	37	2	50779924	50779924	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:50779924G>A	uc010fbq.2	-	9	3157	c.1680C>T	c.(1678-1680)AGC>AGT	p.S560S	NRXN1_uc002rxb.3_Silent_p.S192S|NRXN1_uc002rxe.3_Silent_p.S520S|NRXN1_uc002rxc.1_RNA	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:Variant_position_missing_in_P58400_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			GCTTGCCATGGCTAAATAAGA	0.443													34	78					0	0	0.004878	0	0	
NRXN1	9378	broad.mit.edu	37	2	51254674	51254674	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:51254674C>T	uc010fbq.2	-	2	2215	c.738G>A	c.(736-738)TCG>TCA	p.S246S	NRXN1_uc002rxe.3_Silent_p.S246S|NRXN1_uc002rxd.1_Silent_p.S246S	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:Variant_position_missing_in_P58400_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			AGCCGGTTCGCGAGCAGTCGC	0.756													4	8					0	0	0.001168	0	0	
NRXN1	9378	broad.mit.edu	37	2	51255287	51255287	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:51255287C>T	uc010fbq.2	-	2	1602	c.125G>A	c.(124-126)CGC>CAC	p.R42H	NRXN1_uc002rxe.3_Missense_Mutation_p.R42H|NRXN1_uc002rxd.1_Missense_Mutation_p.R42H	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:Variant_position_missing_in_P58400_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			CTTGGGGAAGCGCGTCCATTG	0.672													4	3					0	0	0.009096	0	0	
MTIF2	4528	broad.mit.edu	37	2	55490845	55490845	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:55490845G>T	uc002ryn.2	-	5	887	c.150C>A	c.(148-150)GCC>GCA	p.A50A	MTIF2_uc010yox.1_Translation_Start_Site|MTIF2_uc002ryo.2_Silent_p.A50A|MTIF2_uc002ryp.1_RNA	NM_001005369	NP_001005369	P46199	IF2M_HUMAN	mitochondrial translational initiation factor 2	50					regulation of translational initiation	mitochondrion	GTP binding|GTPase activity|ribosomal small subunit binding|translation initiation factor activity			ovary(1)	1						GCCAGGGCCAGGCACACAGTT	0.423													13	86					9.05144e-12	9.78013e-12	0.001855	1	0	
SMEK2	57223	broad.mit.edu	37	2	55786066	55786066	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:55786066T>C	uc002rzc.2	-	16	2674	c.2299A>G	c.(2299-2301)ACA>GCA	p.T767A	SMEK2_uc002rzb.2_Missense_Mutation_p.T682A|SMEK2_uc002rzd.2_Missense_Mutation_p.T735A|SMEK2_uc002ryz.2_Missense_Mutation_p.T194A|SMEK2_uc002rza.2_Missense_Mutation_p.T551A	NM_001122964	NP_001116436	Q5MIZ7	P4R3B_HUMAN	SMEK homolog 2, suppressor of mek1 isoform 1	767						microtubule organizing center|nucleus	protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			CCAGGAGATGTCCTTTTGGGA	0.378													4	87					0	0	0.009096	0	0	
EFEMP1	2202	broad.mit.edu	37	2	56098194	56098194	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:56098194G>A	uc002rzh.2	-	9	1395	c.1065C>T	c.(1063-1065)GGC>GGT	p.G355G	EFEMP1_uc002rzi.2_Silent_p.G355G|EFEMP1_uc002rzj.2_Silent_p.G355G|EFEMP1_uc010ypc.1_Silent_p.G217G	NM_004105	NP_004096	Q12805	FBLN3_HUMAN	EGF-containing fibulin-like extracellular matrix	355	Mediates interaction with TIMP3.|EGF-like 6; calcium-binding (Potential).				negative regulation of chondrocyte differentiation|peptidyl-tyrosine phosphorylation|regulation of transcription, DNA-dependent|visual perception	extracellular space|proteinaceous extracellular matrix	calcium ion binding|epidermal growth factor receptor activity|epidermal growth factor receptor binding|growth factor activity			ovary(4)|pancreas(1)|skin(1)	6			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			AACGGAAGCCGCCATGATAAT	0.388													14	46					0	0	0.003163	0	0	
FANCL	55120	broad.mit.edu	37	2	58459193	58459193	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:58459193C>T	uc002rzw.3	-	2	218	c.151G>A	c.(151-153)GCA>ACA	p.A51T	FANCL_uc002rzx.3_Missense_Mutation_p.A51T|FANCL_uc010fce.2_Missense_Mutation_p.A51T|FANCL_uc010fcf.1_Intron	NM_018062	NP_060532	Q9NW38	FANCL_HUMAN	Fanconi anemia, complementation group L isoform	51					DNA repair	cytoplasm|nucleoplasm	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						TATCACCTTGCATTCTTCAGT	0.363								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				14	35					0	0	0.004007	0	0	
PAPOLG	64895	broad.mit.edu	37	2	60997606	60997606	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:60997606C>T	uc002sai.2	+	6	683	c.452C>T	c.(451-453)GCC>GTC	p.A151V	PAPOLG_uc002saj.2_5'UTR|PAPOLG_uc002sak.2_5'UTR	NM_022894	NP_075045	Q9BWT3	PAPOG_HUMAN	poly(A) polymerase gamma	151					mRNA processing|RNA polyadenylation|transcription, DNA-dependent	nucleus	ATP binding|metal ion binding|polynucleotide adenylyltransferase activity|RNA binding			ovary(1)|central_nervous_system(1)	2	all_hematologic(2;0.0797)		LUSC - Lung squamous cell carcinoma(5;1.19e-07)|Lung(5;2.86e-06)|Epithelial(17;0.0768)			GTAGAAGATGCCTTTGTACCT	0.289													8	29					0	0	0.003080	0	0	
PUS10	150962	broad.mit.edu	37	2	61188644	61188644	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:61188644G>A	uc010fci.2	-	10	888	c.828C>T	c.(826-828)TGC>TGT	p.C276C	PUS10_uc002sao.2_Silent_p.C276C|PUS10_uc010ypk.1_Silent_p.C53C	NM_144709	NP_653310	Q3MIT2	PUS10_HUMAN	pseudouridylate synthase 10	276					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			ovary(2)|large_intestine(1)|kidney(1)	4			LUSC - Lung squamous cell carcinoma(5;1.56e-06)|Lung(5;2.48e-05)|Epithelial(17;0.113)			CAAGAACAGCGCATACAGCCT	0.348													25	324					0	0	0.009535	0	0	
PUS10	150962	broad.mit.edu	37	2	61192233	61192233	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:61192233G>A	uc010fci.2	-	8	743	c.683C>T	c.(682-684)GCG>GTG	p.A228V	PUS10_uc002sao.2_Missense_Mutation_p.A228V|PUS10_uc010ypk.1_Missense_Mutation_p.A5V	NM_144709	NP_653310	Q3MIT2	PUS10_HUMAN	pseudouridylate synthase 10	228					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			ovary(2)|large_intestine(1)|kidney(1)	4			LUSC - Lung squamous cell carcinoma(5;1.56e-06)|Lung(5;2.48e-05)|Epithelial(17;0.113)			TGGGCATATCGCAGCTCTAAA	0.328													34	68					0	0	0.006230	0	0	
USP34	9736	broad.mit.edu	37	2	61415812	61415812	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:61415812G>A	uc002sbe.2	-	80	10088	c.10066C>T	c.(10066-10068)CGT>TGT	p.R3356C	USP34_uc002sbd.2_Missense_Mutation_p.R158C	NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	3356					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity	p.R3356P(1)		ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			CTGCTAACACGCCGCCTTTTA	0.478													15	52					0	0	0.004990	0	0	
USP34	9736	broad.mit.edu	37	2	61447484	61447484	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:61447484G>A	uc002sbe.2	-	67	8030	c.8008C>T	c.(8008-8010)CGG>TGG	p.R2670W		NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	2670					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			AAAAGAAACCGCTCGACCCAG	0.378													26	336					0	0	0.007291	0	0	
USP34	9736	broad.mit.edu	37	2	61575222	61575222	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:61575222G>A	uc002sbe.2	-	15	2090	c.2068C>T	c.(2068-2070)CGA>TGA	p.R690*		NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	690					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			TCCAGCATTCGCATTCGATTA	0.443													43	95					0	0	0.003610	0	0	
USP34	9736	broad.mit.edu	37	2	61597500	61597500	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:61597500G>A	uc002sbe.2	-	10	1229	c.1207C>T	c.(1207-1209)CGA>TGA	p.R403*		NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	403					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			GTACTCAGTCGCCCTTCTGCT	0.249													34	116					0	0	0.006230	0	0	
VPS54	51542	broad.mit.edu	37	2	64144047	64144047	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:64144047A>G	uc002scq.2	-	16	2378	c.2215T>C	c.(2215-2217)TAT>CAT	p.Y739H	VPS54_uc002scp.2_Missense_Mutation_p.Y727H|VPS54_uc002scn.2_5'UTR|VPS54_uc002sco.2_Missense_Mutation_p.Y224H|VPS54_uc010fct.2_Missense_Mutation_p.Y586H	NM_016516	NP_057600	Q9P1Q0	VPS54_HUMAN	vacuolar protein sorting 54 isoform 1	739					protein transport|retrograde transport, endosome to Golgi						0						ACAACTGCATACTGTTGTCCC	0.378													3	74					0	0	0.004672	0	0	
SPRED2	200734	broad.mit.edu	37	2	65540766	65540766	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:65540766G>T	uc002sdr.3	-	6	1661	c.1126C>A	c.(1126-1128)CTC>ATC	p.L376I	SPRED2_uc010fcw.2_Missense_Mutation_p.L373I	NM_181784	NP_861449	Q7Z698	SPRE2_HUMAN	sprouty-related protein with EVH-1 domain 2	376	SPR.				inactivation of MAPK activity|multicellular organismal development	transport vesicle membrane	stem cell factor receptor binding			ovary(1)|lung(1)|central_nervous_system(1)	3						ATCCACCGGAGGCAAAACTTC	0.572													7	30					8.12818e-05	8.5301e-05	0.001984	1	0	
PROKR1	10887	broad.mit.edu	37	2	68882118	68882118	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:68882118G>A	uc010yqj.1	+	2	592	c.592G>A	c.(592-594)GCC>ACC	p.A198T	PROKR1_uc002ses.2_RNA	NM_138964	NP_620414	Q8TCW9	PKR1_HUMAN	G protein-coupled receptor 73	198	Helical; Name=4; (Potential).					integral to membrane|plasma membrane	neuropeptide Y receptor activity			ovary(1)	1						CATCCCTTCCGCCTACTTCAC	0.567													11	96					0	0	0.008291	0	0	
AAK1	22848	broad.mit.edu	37	2	69870045	69870045	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:69870045C>T	uc002sfp.2	-	2	633	c.128G>A	c.(127-129)CGA>CAA	p.R43Q	AAK1_uc010fdk.2_Missense_Mutation_p.R43Q|AAK1_uc010yqm.1_Missense_Mutation_p.R43Q|AAK1_uc010fdm.1_Missense_Mutation_p.R43Q	NM_014911	NP_055726	Q2M2I8	AAK1_HUMAN	AP2 associated kinase 1	43						coated pit|mitochondrion|plasma membrane	ATP binding|protein serine/threonine kinase activity				0						GACCTGCTGTCGCCCGATGCC	0.622													7	29					0	0	0.006214	0	0	
TGFA	7039	broad.mit.edu	37	2	70692857	70692857	+	Missense_Mutation	SNP	C	T	T	rs147786817	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:70692857C>T	uc002sgs.3	-	3	312	c.106G>A	c.(106-108)GTG>ATG	p.V36M	TGFA_uc010fdq.2_Missense_Mutation_p.V42M|TGFA_uc010fdr.2_Missense_Mutation_p.V41M|TGFA_uc002sgt.3_Missense_Mutation_p.V35M|TGFA_uc002sgu.2_Missense_Mutation_p.V35M|TGFA_uc002sgv.2_Missense_Mutation_p.V36M|TGFA_uc002sgw.2_Missense_Mutation_p.V35M	NM_003236	NP_003227	P01135	TGFA_HUMAN	transforming growth factor, alpha isoform 1	36	Extracellular (Potential).				activation of MAPK activity|cell proliferation|positive regulation of cell division|positive regulation of epidermal growth factor receptor activity|positive regulation of epithelial cell proliferation|positive regulation of mitosis	cell surface|extracellular space|integral to membrane|plasma membrane	epidermal growth factor receptor binding|growth factor activity|MAP kinase kinase activity|signal transducer activity			prostate(1)	1						GCTGCAGCCACGGGCGGGTCT	0.567													6	12					0	0	0.003080	0	0	
ADD2	119	broad.mit.edu	37	2	70933382	70933382	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:70933382G>A	uc002sgz.2	-	3	624	c.159C>T	c.(157-159)CGC>CGT	p.R53R	ADD2_uc010fds.1_RNA|ADD2_uc002sgy.2_Silent_p.R53R|ADD2_uc002sha.2_Silent_p.R53R|ADD2_uc002sgx.2_Silent_p.R53R|ADD2_uc010fdt.1_Silent_p.R53R|ADD2_uc002shc.1_Silent_p.R53R|ADD2_uc002shd.1_Silent_p.R53R|ADD2_uc010fdu.1_Silent_p.R69R	NM_001617	NP_001608	P35612	ADDB_HUMAN	adducin 2 isoform a	53					actin filament bundle assembly|barbed-end actin filament capping|positive regulation of protein binding	cytoplasm|F-actin capping protein complex|plasma membrane	actin filament binding|calmodulin binding|metal ion binding|protein heterodimerization activity|protein homodimerization activity|spectrin binding			ovary(2)|pancreas(1)	3						TCATGGTGACGCGCTTCTTCT	0.647													5	17					0	0	0.003080	0	0	
CLEC4F	165530	broad.mit.edu	37	2	71036887	71036887	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:71036887C>T	uc002shf.2	-	6	1719	c.1642G>A	c.(1642-1644)GCC>ACC	p.A548T	CLEC4F_uc010yqv.1_Missense_Mutation_p.A548T	NM_173535	NP_775806	Q8N1N0	CLC4F_HUMAN	C-type lectin, superfamily member 13	548	Extracellular (Potential).|C-type lectin.				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(5)	5						TTCTGGGCGGCGTTGAATGGT	0.547													17	53					0	0	0.008871	0	0	
NAGK	55577	broad.mit.edu	37	2	71298926	71298926	+	Silent	SNP	C	T	T	rs11539622	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:71298926C>T	uc002shp.3	+	4	730	c.324C>T	c.(322-324)GCC>GCT	p.A108A	NAGK_uc010fea.2_RNA|NAGK_uc002shq.3_5'UTR|NAGK_uc002shr.2_Silent_p.A57A	NM_017567	NP_060037	Q9UJ70	NAGK_HUMAN	N-Acetylglucosamine kinase	108					N-acetylglucosamine metabolic process|N-acetylmannosamine metabolic process		ATP binding|N-acetylglucosamine kinase activity|protein binding				0					N-Acetyl-D-glucosamine(DB00141)	CCACCGATGCCGCCGGCTCCA	0.572													5	20					0	0	0.006214	0	0	
ZNF638	27332	broad.mit.edu	37	2	71627611	71627611	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:71627611C>T	uc002shx.2	+	15	2979	c.2660C>T	c.(2659-2661)GCT>GTT	p.A887V	ZNF638_uc010yqw.1_Missense_Mutation_p.A466V|ZNF638_uc002shy.2_Missense_Mutation_p.A887V|ZNF638_uc002shz.2_Missense_Mutation_p.A887V|ZNF638_uc002sia.2_Missense_Mutation_p.A887V|ZNF638_uc002sib.1_Missense_Mutation_p.A887V|ZNF638_uc010fed.2_RNA|ZNF638_uc002sic.2_5'UTR	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	887					RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						TATTAAGATGCTGCTTTGGAG	0.299													4	50					0	0	0.000602	0	0	
CCT7	10574	broad.mit.edu	37	2	73478490	73478490	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:73478490G>A	uc002siz.2	+	11	1442	c.1340G>A	c.(1339-1341)CGC>CAC	p.R447H	CCT7_uc002sja.2_Missense_Mutation_p.R243H|CCT7_uc010yrf.1_Missense_Mutation_p.R403H|CCT7_uc010feu.2_Missense_Mutation_p.R405H|CCT7_uc010yrg.1_Missense_Mutation_p.R347H|CCT7_uc010yrh.1_Missense_Mutation_p.R319H|CCT7_uc010yri.1_Missense_Mutation_p.R360H	NM_006429	NP_006420	Q99832	TCPH_HUMAN	chaperonin containing TCP1, subunit 7 isoform a	447					'de novo' posttranslational protein folding		ATP binding|unfolded protein binding				0						ATTATCCCACGCCAGCTGTGT	0.537													8	115					0	0	0.004482	0	0	
EGR4	1961	broad.mit.edu	37	2	73518781	73518781	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:73518781C>A	uc010yrj.1	-	2	1649	c.1574G>T	c.(1573-1575)AGC>ATC	p.S525I	EGR4_uc010yrk.1_Missense_Mutation_p.S524I	NM_001965	NP_001956	Q05215	EGR4_HUMAN	early growth response 4	421						intracellular	nucleic acid binding|zinc ion binding				0						GAGGTGGTCGCTGCGGCTGAA	0.662													6	13					1.76689e-08	1.88842e-08	0.006214	1	0	
EGR4	1961	broad.mit.edu	37	2	73519457	73519457	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:73519457C>T	uc010yrj.1	-	2	973	c.898G>A	c.(898-900)GCT>ACT	p.A300T	EGR4_uc010yrk.1_Missense_Mutation_p.A299T	NM_001965	NP_001956	Q05215	EGR4_HUMAN	early growth response 4	196						intracellular	nucleic acid binding|zinc ion binding				0						GCAGAGACAGCGTCCAGCGCT	0.711													4	5					0	0	0.001168	0	0	
ALMS1	7840	broad.mit.edu	37	2	73717261	73717261	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:73717261C>T	uc002sje.1	+	12	8289	c.8178C>T	c.(8176-8178)TGC>TGT	p.C2726C	ALMS1_uc002sjf.1_Silent_p.C2682C|ALMS1_uc002sjg.2_Silent_p.C2112C|ALMS1_uc002sjh.1_Silent_p.C2112C	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	2724					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						ATTCTAAATGCATTTCCAATT	0.398													35	103					0	0	0.004289	0	0	
ACTG2	72	broad.mit.edu	37	2	74136221	74136221	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:74136221G>A	uc002sjw.2	+	5	528	c.406G>A	c.(406-408)GCC>ACC	p.A136T	ACTG2_uc010fey.2_Missense_Mutation_p.A136T|ACTG2_uc010yrn.1_Missense_Mutation_p.A93T	NM_001615	NP_001606	P63267	ACTH_HUMAN	actin, gamma 2 propeptide	136					muscle contraction	cytoskeleton|cytosol	ATP binding				0						CATGTACGTCGCCATTCAAGC	0.453													25	64					0	0	0.002096	0	0	
TET3	200424	broad.mit.edu	37	2	74317033	74317033	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:74317033C>T	uc002skb.3	+	5	2493	c.2493C>T	c.(2491-2493)TGC>TGT	p.C831C		NM_144993	NP_659430	O43151	TET3_HUMAN	tet oncogene family member 3	831							metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						GCCGGACCTGCGCTTGCCAAG	0.557													41	100					0	0	0.003610	0	0	
MOGS	7841	broad.mit.edu	37	2	74688835	74688835	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:74688835A>G	uc010ffj.2	-	4	2244	c.2081T>C	c.(2080-2082)CTT>CCT	p.L694P	MOGS_uc010ffh.2_Missense_Mutation_p.L419P|MOGS_uc010yrt.1_Missense_Mutation_p.L575P|MOGS_uc010ffi.2_Missense_Mutation_p.L588P	NM_006302	NP_006293	Q13724	MOGS_HUMAN	mannosyl-oligosaccharide glucosidase isoform 1	694	Lumenal (Potential).				oligosaccharide metabolic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane|membrane fraction	mannosyl-oligosaccharide glucosidase activity				0						CAAGGGAAAAAGACTGACATA	0.617													16	34					0	0	0.004990	0	0	
HK2	3099	broad.mit.edu	37	2	75116443	75116443	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:75116443G>A	uc002snd.2	+	17	4373	c.2447G>A	c.(2446-2448)AGC>AAC	p.S816N		NM_000189	NP_000180	P52789	HXK2_HUMAN	hexokinase 2	816	Catalytic.				apoptotic mitochondrial changes|glucose transport|glycolysis|transmembrane transport	cytosol|mitochondrial outer membrane	ATP binding|glucokinase activity			ovary(1)|lung(1)	2						TGTGACGACAGCATCATTGTT	0.612													8	23					0	0	0.003080	0	0	
LRRTM1	347730	broad.mit.edu	37	2	80530493	80530493	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:80530493G>A	uc002sok.1	-	2	722	c.452C>T	c.(451-453)GCG>GTG	p.A151V	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	151	LRR 3.|Lumenal (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						GGGCGCGAGCGCCTGCAGCTT	0.637										HNSCC(69;0.2)			8	27					0	0	0.004482	0	0	
KCMF1	56888	broad.mit.edu	37	2	85276640	85276640	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:85276640A>G	uc002sox.3	+	6	1097	c.753A>G	c.(751-753)GCA>GCG	p.A251A		NM_020122	NP_064507	Q9P0J7	KCMF1_HUMAN	potassium channel modulatory factor 1	251	Potential.					intracellular	ligase activity|zinc ion binding			ovary(2)	2						TGGAGACCGCACGCAACGCAA	0.527													4	48					0	0	0.009096	0	0	
RETSAT	54884	broad.mit.edu	37	2	85578103	85578103	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:85578103G>A	uc002spd.2	-	3	588	c.397C>T	c.(397-399)CGT>TGT	p.R133C	RETSAT_uc010fge.2_RNA|RETSAT_uc010ysm.1_Missense_Mutation_p.R72C|RETSAT_uc010fgf.2_Intron	NM_017750	NP_060220	Q6NUM9	RETST_HUMAN	all-trans-13,14-dihydroretinol saturase	133					retinol metabolic process	endoplasmic reticulum membrane|nuclear outer membrane	all-trans-retinol 13,14-reductase activity|electron carrier activity			ovary(2)	2					Vitamin A(DB00162)	AAGATAAAACGGCCAATGCTG	0.517													8	33					0	0	0.004007	0	0	
KDM3A	55818	broad.mit.edu	37	2	86677062	86677062	+	Nonsense_Mutation	SNP	C	T	T	rs150111816		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:86677062C>T	uc002sri.3	+	3	646	c.319C>T	c.(319-321)CGA>TGA	p.R107*	KDM3A_uc010ytj.1_Nonsense_Mutation_p.R107*|KDM3A_uc010ytk.1_Intron	NM_018433	NP_060903	Q9Y4C1	KDM3A_HUMAN	jumonji domain containing 1A	107					androgen receptor signaling pathway|cell differentiation|formaldehyde biosynthetic process|histone H3-K9 demethylation|hormone-mediated signaling pathway|positive regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	cytoplasm|nucleus	androgen receptor binding|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	5						AATTTCTGAACGAATTGTACA	0.373													12	126					0	0	0.001368	0	0	
KDM3A	55818	broad.mit.edu	37	2	86705832	86705832	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:86705832C>T	uc002sri.3	+	15	2617	c.2290C>T	c.(2290-2292)CCA>TCA	p.P764S	KDM3A_uc010ytj.1_Missense_Mutation_p.P764S|KDM3A_uc010ytk.1_Missense_Mutation_p.P712S	NM_018433	NP_060903	Q9Y4C1	KDM3A_HUMAN	jumonji domain containing 1A	764					androgen receptor signaling pathway|cell differentiation|formaldehyde biosynthetic process|histone H3-K9 demethylation|hormone-mediated signaling pathway|positive regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	cytoplasm|nucleus	androgen receptor binding|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	5						CTTTTCAAAGCCAGCCTCAAA	0.363													16	90					0	0	0.004990	0	0	
LOC285074	285074	broad.mit.edu	37	2	87276787	87276787	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:87276787G>A	uc002ssg.1	-	1	903	c.203C>T	c.(202-204)GCG>GTG	p.A68V	RMND5A_uc002srs.3_Intron|LOC285074_uc010fgw.2_Missense_Mutation_p.A29V|LOC285074_uc002ssf.3_Missense_Mutation_p.A29V					SubName: Full=cDNA FLJ10361 fis, clone NT2RM2001256, highly similar to Anaphase-promoting complex subunit 1;												0						GACAGGATGCGCACTCTGAAG	0.468													45	56					0	0	0.003610	0	0	
THNSL2	55258	broad.mit.edu	37	2	88474827	88474827	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:88474827G>A	uc002ssz.3	+	4	631	c.478G>A	c.(478-480)GAC>AAC	p.D160N	THNSL2_uc002ssv.2_RNA|THNSL2_uc002ssw.3_Missense_Mutation_p.D160N|THNSL2_uc002ssx.3_Missense_Mutation_p.D128N|THNSL2_uc002sta.3_Missense_Mutation_p.D2N|THNSL2_uc002ssy.3_Missense_Mutation_p.D160N|THNSL2_uc010fhe.2_Missense_Mutation_p.D2N	NM_018271	NP_060741	Q86YJ6	THNS2_HUMAN	threonine synthase-like 2	160					threonine biosynthetic process		threonine synthase activity			ovary(1)	1						AAAGAACATGGACATTATCGT	0.493													12	35					0	0	0.002450	0	0	
Unknown	0	broad.mit.edu	37	2	90212138	90212138	+	RNA	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:90212138G>A	uc010fhm.2	+	26		c.3562G>A								Parts of antibodies, mostly variable regions.																		AGGGCCACTGGCATCCCAGCC	0.557													20	52					0	0	0.002299	0	0	
Unknown	0	broad.mit.edu	37	2	90260044	90260044	+	RNA	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:90260044G>T	uc010fhm.2	+	30		c.4027G>T								Parts of antibodies, mostly variable regions.																		GGATGAGTCAGGGCATTAGCA	0.498													5	138					0.00116845	0.00121571	0.001168	1	0	
FKSG73	440888	broad.mit.edu	37	2	92129602	92129602	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:92129602G>A	uc010yuc.1	+	1	444	c.393G>A	c.(391-393)GTG>GTA	p.V131V		NR_027714				SubName: Full=FKSG73; SubName: Full=FKSG73 protein, isoform CRA_a;												0						GTATCAATGTGATCAACCAGG	0.378													3	6					0	0	0.004672	0	0	
FAHD2A	51011	broad.mit.edu	37	2	96072853	96072853	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:96072853C>T	uc002sur.2	+	3	589	c.410C>T	c.(409-411)GCC>GTC	p.A137V	FAHD2A_uc002sus.2_Missense_Mutation_p.A137V	NM_016044	NP_057128	Q96GK7	FAH2A_HUMAN	fumarylacetoacetate hydrolase domain containing	137							hydrolase activity|metal ion binding			ovary(1)	1						AGCAAGTTTGCCAGCTCCATC	0.577													18	73					0	0	0.003954	0	0	
Unknown	0	broad.mit.edu	37	2	96657298	96657298	+	RNA	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:96657298G>A	uc010yug.1	-	1		c.244C>T								Homo sapiens cDNA FLJ54441 complete cds, highly similar to Homo sapiens ankyrin repeat domain 36 (ANKRD36), mRNA.																		CATAACGCGTGAGCAGAACGA	0.522													6	20					0	0	0.003080	0	0	
STARD7	56910	broad.mit.edu	37	2	96858204	96858204	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:96858204G>A	uc002svm.3	-	6	1147	c.746C>T	c.(745-747)GCT>GTT	p.A249V	STARD7_uc002svl.2_Missense_Mutation_p.A27V	NM_020151	NP_064536	Q9NQZ5	STAR7_HUMAN	START domain containing 7 precursor	249	START.					mitochondrion					0						ATGCTCCACAGCACTGGTAAG	0.453													37	128					0	0	0.006230	0	0	
ITPRIPL1	150771	broad.mit.edu	37	2	96992605	96992605	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:96992605A>G	uc002svx.2	+	3	571	c.236A>G	c.(235-237)GAC>GGC	p.D79G	ITPRIPL1_uc010yuk.1_Missense_Mutation_p.D71G|ITPRIPL1_uc002svy.2_Missense_Mutation_p.D87G|ITPRIPL1_uc010yul.1_Missense_Mutation_p.D71G	NM_001008949	NP_001008949	Q6GPH6	IPIL1_HUMAN	inositol 1,4,5-triphosphate receptor interacting	79	Extracellular (Potential).					integral to membrane				central_nervous_system(2)|ovary(1)	3						TGGACAGGAGACACATCCAGT	0.572													4	57					0	0	0.009096	0	0	
NCAPH	23397	broad.mit.edu	37	2	97024926	97024926	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:97024926G>A	uc002svz.1	+	10	1436	c.1352G>A	c.(1351-1353)CGC>CAC	p.R451H	NCAPH_uc010fhu.1_Missense_Mutation_p.R427H|NCAPH_uc010fhv.1_Missense_Mutation_p.R440H|NCAPH_uc010yum.1_Missense_Mutation_p.R427H|NCAPH_uc010fhw.1_Missense_Mutation_p.R440H|NCAPH_uc010yun.1_Missense_Mutation_p.R315H|NCAPH_uc002swa.1_Missense_Mutation_p.R46H	NM_015341	NP_056156	Q15003	CND2_HUMAN	non-SMC condensin I complex, subunit H	451					cell division|mitotic chromosome condensation	condensin complex|cytoplasm|microtubule cytoskeleton|nucleus				urinary_tract(1)|skin(1)	2		Ovarian(717;0.0221)				AGGCCTCGACGCAAACGTATG	0.483													7	58					0	0	0.003080	0	0	
FER1L5	90342	broad.mit.edu	37	2	97364841	97364841	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:97364841C>T	uc010fia.2	+	41	4659	c.4659C>T	c.(4657-4659)TAC>TAT	p.Y1553Y	FER1L5_uc002sws.3_Silent_p.Y271Y|FER1L5_uc010fib.1_RNA|FER1L5_uc002swt.3_Silent_p.Y271Y|FER1L5_uc010yus.1_Silent_p.Y270Y	NM_001113382	NP_001106853	A0AVI2	FR1L5_HUMAN	fer-1-like 5 isoform 2	1553	C2 5.					integral to membrane				ovary(1)	1						GGGACATGTACCAGCCCAACA	0.423													4	23					0	0	0.000602	0	0	
FER1L5	90342	broad.mit.edu	37	2	97369074	97369074	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:97369074G>A	uc010fia.2	+	49	5790	c.5790G>A	c.(5788-5790)TGG>TGA	p.W1930*	FER1L5_uc002sws.3_Nonsense_Mutation_p.W639*|FER1L5_uc002swt.3_Nonsense_Mutation_p.W639*|FER1L5_uc010yus.1_Nonsense_Mutation_p.W638*	NM_001113382	NP_001106853	A0AVI2	FR1L5_HUMAN	fer-1-like 5 isoform 2	1930						integral to membrane				ovary(1)	1						GTGGCAAATGGCGCTTGTCGG	0.517													17	53					0	0	0.010504	0	0	
ANKRD36	375248	broad.mit.edu	37	2	97784178	97784178	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:97784178A>G	uc010yva.1	+	3	654	c.410A>G	c.(409-411)TAC>TGC	p.Y137C	ANKRD36_uc002sxn.2_Missense_Mutation_p.Y137C|ANKRD36_uc010yuz.1_RNA|ANKRD36_uc010fic.2_5'UTR|ANKRD36_uc002sxo.2_Missense_Mutation_p.Y137C|ANKRD36_uc002sxp.3_RNA	NM_001164315	NP_001157787	A6QL64	AN36A_HUMAN	ankyrin repeat domain 36	137	ANK 4.										0						GCTCTGCACTACGCTGTGTAT	0.408													18	35					0	0	0.006122	0	0	
LIPT1	51601	broad.mit.edu	37	2	99778541	99778541	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:99778541G>A	uc002szm.3	+	4	461	c.121G>A	c.(121-123)GTC>ATC	p.V41I	MRPL30_uc002szl.1_Intron|LIPT1_uc002szn.3_Missense_Mutation_p.V41I|LIPT1_uc002szo.3_Missense_Mutation_p.V41I|LIPT1_uc002szp.3_Missense_Mutation_p.V41I|LIPT1_uc002szq.3_Missense_Mutation_p.V41I|MRPL30_uc002szr.2_Intron	NM_145198	NP_660199	Q9Y234	LIPT_HUMAN	lipoyltransferase 1 precursor	41					lipid metabolic process|protein lipoylation	mitochondrion	acyltransferase activity				0					Lipoic Acid(DB00166)	TTCCAATGATGTCTATCAAAA	0.388													8	143					0	0	0.004482	0	0	
EIF5B	9669	broad.mit.edu	37	2	99978220	99978220	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:99978220A>T	uc002tab.2	+	4	1040	c.856A>T	c.(856-858)ACT>TCT	p.T286S		NM_015904	NP_056988	O60841	IF2P_HUMAN	eukaryotic translation initiation factor 5B	286					regulation of translational initiation	cytosol	GTP binding|GTPase activity|protein binding|translation initiation factor activity			ovary(2)|pancreas(1)	3						ATCCAAAGTGACTGTTGATAC	0.378													37	143					0	0	0.006230	0	0	
TBC1D8	11138	broad.mit.edu	37	2	101627911	101627911	+	Splice_Site	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:101627911G>A	uc010fiv.2	-	18	3003	c.2872_splice	c.e18+1	p.G958_splice	RPL31_uc010yvu.1_Intron|RPL31_uc010yvv.1_Intron|RPL31_uc010fiu.1_Intron|TBC1D8_uc002tau.3_Splice_Site_p.G715_splice	NM_001102426	NP_001095896	O95759	TBCD8_HUMAN	TBC1 domain family, member 8						blood circulation|positive regulation of cell proliferation	intracellular|membrane	calcium ion binding|Rab GTPase activator activity			ovary(3)	3						AGAGGTACGTGCCATTGGGTT	0.517													5	89					0	0	0.004482	0	0	
IL1RL1	9173	broad.mit.edu	37	2	102965663	102965663	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:102965663C>A	uc002tbu.1	+	10	1513	c.1242C>A	c.(1240-1242)GGC>GGA	p.G414G	IL18R1_uc002tbw.3_Intron	NM_016232	NP_057316	Q01638	ILRL1_HUMAN	interleukin 1 receptor-like 1 isoform 1	414	TIR.|Cytoplasmic (Potential).				innate immune response	integral to membrane	interleukin-1 receptor activity|receptor signaling protein activity			skin(2)|ovary(1)|central_nervous_system(1)	4						ATAAATGTGGCTATACCTTAT	0.413													7	99					8.12818e-05	8.5301e-05	0.001984	1	0	
MFSD9	84804	broad.mit.edu	37	2	103334879	103334879	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:103334879C>T	uc002tcb.2	-	6	1493	c.1425G>A	c.(1423-1425)TAG>TAA	p.*475*	MFSD9_uc010fja.2_RNA	NM_032718	NP_116107	Q8NBP5	MFSD9_HUMAN	major facilitator superfamily domain containing	475					transmembrane transport	integral to membrane|plasma membrane	transporter activity			ovary(2)|breast(2)	4						CCAAATCCATCTACTCACTTT	0.453													6	101					0	0	0.001984	0	0	
MRPS9	64965	broad.mit.edu	37	2	105713663	105713663	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:105713663A>G	uc002tcn.3	+	10	1048	c.980A>G	c.(979-981)GAC>GGC	p.D327G		NM_182640	NP_872578	P82933	RT09_HUMAN	mitochondrial ribosomal protein S9 precursor	327					DNA damage response, detection of DNA damage|translation	mitochondrial small ribosomal subunit	protein binding|structural constituent of ribosome				0						GGAAAGCACGACGTGACCTGC	0.512													4	44					0	0	0.000602	0	0	
GPR45	11250	broad.mit.edu	37	2	105858977	105858977	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:105858977C>T	uc002tco.1	+	1	778	c.662C>T	c.(661-663)ACG>ATG	p.T221M		NM_007227	NP_009158	Q9Y5Y3	GPR45_HUMAN	G protein-coupled receptor 45	221	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3						ATCCTCAACACGGTCCGCAAG	0.677													14	28					0	0	0.001855	0	0	
RGPD3	653489	broad.mit.edu	37	2	107049681	107049681	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:107049681T>C	uc010ywi.1	-	16	2323	c.2266A>G	c.(2266-2268)AAC>GAC	p.N756D		NM_001144013	NP_001137485	A6NKT7	RGPD3_HUMAN	RANBP2-like and GRIP domain containing 3	756					intracellular transport		binding			ovary(1)	1						TCACTATAGTTTTCGAGTTCC	0.373													10	272					0	0	0.006214	0	0	
ST6GAL2	84620	broad.mit.edu	37	2	107460198	107460198	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:107460198G>A	uc002tdq.2	-	2	355	c.236C>T	c.(235-237)GCG>GTG	p.A79V	ST6GAL2_uc002tdr.2_Missense_Mutation_p.A79V|ST6GAL2_uc002tds.3_Missense_Mutation_p.A79V	NM_001142351	NP_001135823	Q96JF0	SIAT2_HUMAN	ST6 beta-galactosamide	79	Lumenal (Potential).				growth|multicellular organismal development|oligosaccharide metabolic process|protein glycosylation	Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,6-sialyltransferase activity	p.A79V(1)		pancreas(6)|ovary(4)|skin(1)	11						GCGGGGCAGCGCCTGGCGTGC	0.662													6	17					0	0	0.003080	0	0	
SLC5A7	60482	broad.mit.edu	37	2	108618435	108618435	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:108618435C>T	uc002tdv.2	+	6	956	c.680C>T	c.(679-681)CCG>CTG	p.P227L	SLC5A7_uc010ywm.1_5'UTR|SLC5A7_uc010fjj.2_Missense_Mutation_p.P227L|SLC5A7_uc010ywn.1_Missense_Mutation_p.P114L	NM_021815	NP_068587	Q9GZV3	SC5A7_HUMAN	solute carrier family 5 (choline transporter),	227	Cytoplasmic (Potential).				acetylcholine biosynthetic process|neurotransmitter secretion	integral to membrane|plasma membrane	choline:sodium symporter activity			ovary(2)|central_nervous_system(1)|skin(1)	4					Choline(DB00122)	TACCAAAAGCCGTGGCTGGGA	0.453													11	62					0	0	0.001368	0	0	
SULT1C3	442038	broad.mit.edu	37	2	108868906	108868906	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:108868906A>G	uc010ywo.1	+	2	258	c.258A>G	c.(256-258)AGA>AGG	p.R86R		NM_001008743	NP_001008743	Q6IMI6	ST1C3_HUMAN	sulfotransferase family, cytosolic, 1C, member	86						cytoplasm	alcohol sulfotransferase activity			skin(1)	1						CTCTAGATAGACACGCTTTCC	0.373													3	52					0	0	0.004672	0	0	
RANBP2	5903	broad.mit.edu	37	2	109382686	109382686	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:109382686A>G	uc002tem.3	+	20	5817	c.5691A>G	c.(5689-5691)GGA>GGG	p.G1897G		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	1897					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						CTGCTGATGGATTTAAATTTG	0.383													19	205					0	0	0.002780	0	0	
NPHP1	4867	broad.mit.edu	37	2	110927445	110927445	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:110927445C>T	uc002tfn.3	-	5	554	c.460G>A	c.(460-462)GGT>AGT	p.G154S	NPHP1_uc002tfm.3_Missense_Mutation_p.G154S|NPHP1_uc002tfl.3_Missense_Mutation_p.G154S|NPHP1_uc002tfo.3_Missense_Mutation_p.G92S|NPHP1_uc010ywx.1_Missense_Mutation_p.G154S|NPHP1_uc010fjv.1_Missense_Mutation_p.G154S	NM_207181	NP_997064	O15259	NPHP1_HUMAN	nephrocystin 1 isoform 2	154	SH3.				actin cytoskeleton organization|cell projection organization|cell-cell adhesion|excretion|retina development in camera-type eye|signal transduction|spermatid differentiation|visual behavior	adherens junction|cell-cell junction|cilium axoneme|cytoplasm|cytoskeleton|motile cilium|photoreceptor connecting cilium	protein binding|structural molecule activity			ovary(2)	2						TATTCTTCACCGGTTGACCAT	0.244													26	61					0	0	0.008361	0	0	
TTL	150465	broad.mit.edu	37	2	113243554	113243554	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:113243554G>A	uc002thu.2	+	2	397	c.218G>A	c.(217-219)CGC>CAC	p.R73H		NM_153712	NP_714923	Q8NG68	TTL_HUMAN	tubulin tyrosine ligase	73	TTL.				protein modification process		ATP binding|tubulin-tyrosine ligase activity				0		Ovarian(717;0.024)		BRCA - Breast invasive adenocarcinoma(221;6.17e-07)|STAD - Stomach adenocarcinoma(1183;0.00644)		AAACTGTGTCGCAAAGCTTCT	0.458			T	ETV6	ALL								9	102					0	0	0.006214	0	0	
POLR1B	84172	broad.mit.edu	37	2	113331267	113331267	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:113331267C>T	uc002thw.2	+	14	2980	c.2400C>T	c.(2398-2400)GAC>GAT	p.D800D	POLR1B_uc010fkn.2_Silent_p.D744D|POLR1B_uc002thx.2_Silent_p.D661D|POLR1B_uc010fko.2_Silent_p.D617D|POLR1B_uc010fkp.2_Silent_p.D239D|POLR1B_uc010yxn.1_Silent_p.D838D|POLR1B_uc002thy.2_Silent_p.D661D|POLR1B_uc010yxo.1_Silent_p.D577D	NM_019014	NP_061887	Q9H9Y6	RPA2_HUMAN	RNA polymerase I polypeptide B isoform 1	800				D -> G (in Ref. 1; BAC87247).	termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|protein binding|ribonucleoside binding			ovary(1)	1						AACCTGGTGACCCACGCGTTC	0.463													38	95					0	0	0.006999	0	0	
SLC20A1	6574	broad.mit.edu	37	2	113414818	113414818	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:113414818C>T	uc002tib.2	+	6	1224	c.778C>T	c.(778-780)CGA>TGA	p.R260*	SLC20A1_uc002tic.1_Nonsense_Mutation_p.R72*	NM_005415	NP_005406	Q8WUM9	S20A1_HUMAN	solute carrier family 20 (phosphate	260	Cytoplasmic (Potential).				phosphate metabolic process|positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to plasma membrane	inorganic phosphate transmembrane transporter activity|receptor activity|sodium-dependent phosphate transmembrane transporter activity			ovary(2)	2						AAAAATTGAACGTAAGTAATA	0.373													13	42					0	0	0.001368	0	0	
CKAP2L	150468	broad.mit.edu	37	2	113510001	113510001	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:113510001G>T	uc002tie.2	-	5	1524	c.1445C>A	c.(1444-1446)CCT>CAT	p.P482H	CKAP2L_uc002tif.2_Missense_Mutation_p.P71H|CKAP2L_uc010yxp.1_Missense_Mutation_p.P317H|CKAP2L_uc010yxq.1_Missense_Mutation_p.P317H	NM_152515	NP_689728	Q8IYA6	CKP2L_HUMAN	cytoskeleton associated protein 2-like	482						centrosome					0						TTCCATAGGAGGCCGTTTATA	0.313													8	50					0.00307968	0.00319789	0.003080	1	0	
CKAP2L	150468	broad.mit.edu	37	2	113514730	113514730	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:113514730G>T	uc002tie.2	-	4	297	c.218C>A	c.(217-219)TCC>TAC	p.S73Y	CKAP2L_uc002tif.2_5'UTR|CKAP2L_uc010yxp.1_5'UTR|CKAP2L_uc010yxq.1_5'UTR	NM_152515	NP_689728	Q8IYA6	CKP2L_HUMAN	cytoskeleton associated protein 2-like	73						centrosome					0						AATGCTGATGGACCTTTTAGG	0.403													11	201					0.00010058	0.000105469	0.001368	1	0	
CKAP2L	150468	broad.mit.edu	37	2	113520091	113520091	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:113520091G>A	uc002tie.2	-	2	172	c.93C>T	c.(91-93)AGC>AGT	p.S31S	CKAP2L_uc002tif.2_5'UTR|CKAP2L_uc010yxp.1_5'UTR|CKAP2L_uc010yxq.1_Intron	NM_152515	NP_689728	Q8IYA6	CKP2L_HUMAN	cytoskeleton associated protein 2-like	31						centrosome					0						TGGTGTTTTGGCTCTTCAGTT	0.413													6	33					0	0	0.003080	0	0	
DPP10	57628	broad.mit.edu	37	2	116572398	116572398	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:116572398C>T	uc002tla.1	+	20	2187	c.1730C>T	c.(1729-1731)ACA>ATA	p.T577I	DPP10_uc002tlb.1_Missense_Mutation_p.T527I|DPP10_uc002tlc.1_Missense_Mutation_p.T573I|DPP10_uc002tle.2_Missense_Mutation_p.T581I|DPP10_uc002tlf.1_Missense_Mutation_p.T570I	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	577	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						CAGCTGGTTACAGATAAGTTC	0.408													27	83					0	0	0.009535	0	0	
DDX18	8886	broad.mit.edu	37	2	118577236	118577236	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:118577236G>A	uc002tlh.1	+	3	481	c.382G>A	c.(382-384)GCA>ACA	p.A128T		NM_006773	NP_006764	Q9NVP1	DDX18_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 18	128							ATP binding|ATP-dependent RNA helicase activity|RNA binding			breast(2)|ovary(1)|lung(1)	4						TACGAAAAAAGCAAAAACTGA	0.308											OREG0003814	type=REGULATORY REGION|Gene=DDX18|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	13	42					0	0	0.004007	0	0	
CCDC93	54520	broad.mit.edu	37	2	118732839	118732839	+	Silent	SNP	C	T	T	rs140835483		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:118732839C>T	uc002tlj.2	-	9	801	c.675G>A	c.(673-675)ACG>ACA	p.T225T	CCDC93_uc010fld.1_Silent_p.T225T	NM_019044	NP_061917	Q567U6	CCD93_HUMAN	coiled-coil domain containing 93	225										large_intestine(1)|ovary(1)	2						CTGGAAGTGCCGTTTTCTTGT	0.522													47	97					0	0	0.003610	0	0	
MARCO	8685	broad.mit.edu	37	2	119752090	119752090	+	Silent	SNP	C	T	T	rs150890503	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:119752090C>T	uc002tln.1	+	17	1689	c.1557C>T	c.(1555-1557)AGC>AGT	p.S519S	MARCO_uc010yyf.1_Silent_p.S441S	NM_006770	NP_006761	Q9UEW3	MARCO_HUMAN	macrophage receptor with collagenous structure	519	SRCR.|Extracellular (Potential).				cell surface receptor linked signaling pathway|innate immune response	collagen|integral to plasma membrane	pattern recognition receptor activity|scavenger receptor activity			ovary(3)|skin(2)|central_nervous_system(1)	6						TGGAGTGCAGCGTCTGACCCG	0.602													8	32					0	0	0.006214	0	0	
STEAP3	55240	broad.mit.edu	37	2	120005382	120005382	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:120005382G>A	uc002tlp.2	+	4	777	c.620G>A	c.(619-621)CGC>CAC	p.R207H	STEAP3_uc002tlq.2_Missense_Mutation_p.R217H|STEAP3_uc002tlr.2_Missense_Mutation_p.R207H|STEAP3_uc010fle.2_Missense_Mutation_p.R207H	NM_018234	NP_060704	Q658P3	STEA3_HUMAN	dudulin 2 isoform b	207	Cytoplasmic (Potential).				apoptosis|cell cycle|cellular iron ion homeostasis|protein secretion|transferrin transport|transmembrane transport	endosome membrane|integral to membrane|multivesicular body	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			central_nervous_system(2)|skin(1)	3						ATGCCCCTGCGCCTCCTCCCG	0.662													5	22					0	0	0.001168	0	0	
STEAP3	55240	broad.mit.edu	37	2	120005645	120005645	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:120005645C>T	uc002tlp.2	+	4	1040	c.883C>T	c.(883-885)CTG>TTG	p.L295L	STEAP3_uc002tlq.2_Silent_p.L305L|STEAP3_uc002tlr.2_Silent_p.L295L|STEAP3_uc010fle.2_Silent_p.L295L	NM_018234	NP_060704	Q658P3	STEA3_HUMAN	dudulin 2 isoform b	295	Ferric oxidoreductase.|Cytoplasmic (Potential).				apoptosis|cell cycle|cellular iron ion homeostasis|protein secretion|transferrin transport|transmembrane transport	endosome membrane|integral to membrane|multivesicular body	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			central_nervous_system(2)|skin(1)	3						CCCCGACTGGCTGGACCACTG	0.687													3	12					0	0	0.001984	0	0	
TMEM177	80775	broad.mit.edu	37	2	120438707	120438707	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:120438707C>T	uc010flg.1	+	2	751	c.278C>T	c.(277-279)GCA>GTA	p.A93V	TMEM177_uc002tme.2_Intron|TMEM177_uc002tmc.1_Missense_Mutation_p.A93V|TMEM177_uc002tmd.2_Missense_Mutation_p.A93V|TMEM177_uc010flh.2_Intron	NM_001105198	NP_001098668	Q53S58	TM177_HUMAN	transmembrane protein 177	93						integral to membrane				ovary(1)	1	Colorectal(110;0.196)					CCTGTGAGTGCAGGCTTCCCA	0.557													7	139					0	0	0.004482	0	0	
TMEM177	80775	broad.mit.edu	37	2	120438980	120438980	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:120438980G>A	uc010flg.1	+	2	1024	c.551G>A	c.(550-552)GGC>GAC	p.G184D	TMEM177_uc002tme.2_Intron|TMEM177_uc002tmc.1_Missense_Mutation_p.G184D|TMEM177_uc002tmd.2_Missense_Mutation_p.G184D|TMEM177_uc010flh.2_Intron	NM_001105198	NP_001098668	Q53S58	TM177_HUMAN	transmembrane protein 177	184	Helical; (Potential).					integral to membrane				ovary(1)	1	Colorectal(110;0.196)					TGGGCACTGGGCGTGGGTGCC	0.642													7	15					0	0	0.003080	0	0	
TMEM177	80775	broad.mit.edu	37	2	120439194	120439194	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:120439194G>A	uc010flg.1	+	2	1238	c.765G>A	c.(763-765)TCG>TCA	p.S255S	TMEM177_uc002tme.2_Intron|TMEM177_uc002tmc.1_Silent_p.S255S|TMEM177_uc002tmd.2_Silent_p.S255S|TMEM177_uc010flh.2_Intron	NM_001105198	NP_001098668	Q53S58	TM177_HUMAN	transmembrane protein 177	255						integral to membrane				ovary(1)	1	Colorectal(110;0.196)					AGCTTCTGTCGGGCAACCTGG	0.587													6	51					0	0	0.001984	0	0	
MYO7B	4648	broad.mit.edu	37	2	128339927	128339927	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:128339927G>A	uc002top.2	+	12	1302	c.1249G>A	c.(1249-1251)GCC>ACC	p.A417T		NM_001080527	NP_001073996	Q6PIF6	MYO7B_HUMAN	myosin VIIB	417	Myosin head-like.					apical plasma membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)|pancreas(1)	2	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0753)		GATCAATGCCGCCATCTTCAC	0.547													9	24					0	0	0.004482	0	0	
MYO7B	4648	broad.mit.edu	37	2	128394476	128394476	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:128394476C>T	uc002top.2	+	46	6290	c.6237C>T	c.(6235-6237)TGC>TGT	p.C2079C	MYO7B_uc002tos.1_Silent_p.C189C|MYO7B_uc002tot.2_Silent_p.C189C	NM_001080527	NP_001073996	Q6PIF6	MYO7B_HUMAN	myosin VIIB	2079	FERM 2.					apical plasma membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)|pancreas(1)	2	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0753)		GCCTGCTGTGCGAGACCTCCC	0.612													4	11					0	0	0.001168	0	0	
GPR17	2840	broad.mit.edu	37	2	128408489	128408489	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:128408489C>T	uc010yzn.1	+	4	875	c.264C>T	c.(262-264)CAC>CAT	p.H88H	LIMS2_uc002tow.2_5'Flank|LIMS2_uc002tox.2_Intron|LIMS2_uc010fmb.2_Intron|LIMS2_uc002toy.2_Intron|LIMS2_uc010yzm.1_Intron|LIMS2_uc002tpa.2_Intron|LIMS2_uc002toz.2_Intron|LIMS2_uc002tpb.2_Intron|GPR17_uc002tpc.2_Silent_p.H88H|GPR17_uc010yzo.1_Silent_p.H60H|GPR17_uc002tpd.2_Silent_p.H60H	NM_001161415	NP_001154887	Q13304	GPR17_HUMAN	G protein-coupled receptor 17 isoform a	88	Cytoplasmic (Potential).					integral to plasma membrane	chemokine receptor activity|purinergic nucleotide receptor activity, G-protein coupled				0	Colorectal(110;0.1)	Ovarian(717;0.15)		BRCA - Breast invasive adenocarcinoma(221;0.0677)		TCCGAGACCACAAGTCCGGGA	0.423													11	70					0	0	0.000978	0	0	
WDR33	55339	broad.mit.edu	37	2	128471545	128471545	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:128471545G>A	uc002tpg.1	-	18	3103	c.2920C>T	c.(2920-2922)CGG>TGG	p.R974W		NM_018383	NP_060853	Q9C0J8	WDR33_HUMAN	WD repeat domain 33 isoform 1	974					postreplication repair|spermatogenesis	collagen|nucleus	protein binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0695)		TGCTCATGCCGCCTCTCTGAC	0.632													9	16					0	0	0.004007	0	0	
TUBA3E	112714	broad.mit.edu	37	2	130949603	130949603	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:130949603G>A	uc002tqv.2	-	5	1255	c.1154C>T	c.(1153-1155)GCG>GTG	p.A385V		NM_207312	NP_997195	Q6PEY2	TBA3E_HUMAN	tubulin, alpha 3e	385					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			skin(1)	1	Colorectal(110;0.1)					CCAGGCCTCCGCAATGGCCGT	0.627													7	60					0	0	0.006214	0	0	
POTEE	445582	broad.mit.edu	37	2	131976329	131976329	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:131976329C>T	uc002tsn.2	+	1	406	c.354C>T	c.(352-354)GGC>GGT	p.G118G	PLEKHB2_uc002tsh.2_Intron|POTEE_uc002tsk.2_5'UTR|POTEE_uc002tsl.2_5'UTR	NM_001083538	NP_001077007	Q6S8J3	POTEE_HUMAN	protein expressed in prostate, ovary, testis,	118							ATP binding				0						GCAAGGTGGGCGCTTGGGGAG	0.597													30	118					0	0	0.006999	0	0	
POTEE	445582	broad.mit.edu	37	2	131976349	131976349	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:131976349A>G	uc002tsn.2	+	1	426	c.374A>G	c.(373-375)GAC>GGC	p.D125G	PLEKHB2_uc002tsh.2_Intron|POTEE_uc002tsk.2_5'UTR|POTEE_uc002tsl.2_5'UTR	NM_001083538	NP_001077007	Q6S8J3	POTEE_HUMAN	protein expressed in prostate, ovary, testis,	125							ATP binding				0						GACTACGATGACAGCGCCTTC	0.592													10	138					0	0	0.001368	0	0	
NCKAP5	344148	broad.mit.edu	37	2	133547759	133547759	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:133547759T>C	uc002ttp.2	-	13	1303	c.929A>G	c.(928-930)AAA>AGA	p.K310R	NCKAP5_uc002ttq.2_Missense_Mutation_p.K310R	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	310							protein binding				0						CAAGGCCGATTTTGTATTTAG	0.483													3	42					0	0	0.004672	0	0	
NCKAP5	344148	broad.mit.edu	37	2	133887575	133887575	+	Missense_Mutation	SNP	G	A	A	rs142446996	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:133887575G>A	uc002ttp.2	-	6	690	c.316C>T	c.(316-318)CGT>TGT	p.R106C	NCKAP5_uc002ttq.2_Missense_Mutation_p.R106C|NCKAP5_uc002ttt.1_Missense_Mutation_p.R106C|NCKAP5_uc002tts.1_Missense_Mutation_p.R81C	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	106	Potential.						protein binding				0						TGCAAGCTACGCATCTGAATT	0.488													12	24					0	0	0.001368	0	0	
NCKAP5	344148	broad.mit.edu	37	2	134060653	134060653	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:134060653C>A	uc002ttp.2	-	4	473	c.99G>T	c.(97-99)GAG>GAT	p.E33D	NCKAP5_uc002ttq.2_Missense_Mutation_p.E33D|NCKAP5_uc002ttt.1_Missense_Mutation_p.E33D|NCKAP5_uc002tts.1_Missense_Mutation_p.E8D	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	33							protein binding				0						TCAGCAGATGCTCAATGTATT	0.428													9	25					0.000442599	0.000462162	0.006214	1	0	
MGAT5	4249	broad.mit.edu	37	2	135185968	135185968	+	Silent	SNP	C	T	T	rs146926321	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:135185968C>T	uc002ttv.1	+	14	1972	c.1827C>T	c.(1825-1827)TGC>TGT	p.C609C		NM_002410	NP_002401	Q09328	MGT5A_HUMAN	N-acetylglucosaminyltransferase V	609	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase activity			ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0964)		AATTTACGTGCGAGGGGATGC	0.453													18	85					0	0	0.001882	0	0	
ACMSD	130013	broad.mit.edu	37	2	135630090	135630090	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:135630090G>A	uc002ttz.2	+	8	795	c.728G>A	c.(727-729)CGC>CAC	p.R243H	ACMSD_uc002tua.2_Missense_Mutation_p.R185H|uc010zbe.1_Intron	NM_138326	NP_612199	Q8TDX5	ACMSD_HUMAN	aminocarboxymuconate semialdehyde decarboxylase	243					quinolinate metabolic process|tryptophan catabolic process	cytosol	aminocarboxymuconate-semialdehyde decarboxylase activity|metal ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.115)		TTCAGCATGCGCCCAGATCTG	0.493													10	39					0	0	0.006214	0	0	
R3HDM1	23518	broad.mit.edu	37	2	136473231	136473231	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:136473231C>T	uc002tuo.2	+	23	3113	c.2743C>T	c.(2743-2745)CCC>TCC	p.P915S	R3HDM1_uc010fni.2_Missense_Mutation_p.P914S|R3HDM1_uc002tup.2_Missense_Mutation_p.P860S|R3HDM1_uc010zbh.1_Missense_Mutation_p.P663S	NM_015361	NP_056176	Q15032	R3HD1_HUMAN	R3H domain containing 1	915							nucleic acid binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.127)		TTCCATCATGCCCCAATTTTC	0.488													27	94					0	0	0.009535	0	0	
UBXN4	23190	broad.mit.edu	37	2	136513161	136513161	+	Silent	SNP	G	A	A	rs149655604	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:136513161G>A	uc002tur.2	+	5	719	c.408G>A	c.(406-408)GCG>GCA	p.A136A	UBXN4_uc002tus.2_5'UTR	NM_014607	NP_055422	Q92575	UBXN4_HUMAN	UBX domain containing 2	136	Cytoplasmic (Potential).				response to unfolded protein	endoplasmic reticulum membrane|nuclear envelope	protein binding			skin(2)	2						CTCCATCTGCGTCATTTGAAC	0.393													24	45					0	0	0.003954	0	0	
LCT	3938	broad.mit.edu	37	2	136558281	136558281	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:136558281C>T	uc002tuu.1	-	12	4773	c.4762G>A	c.(4762-4764)GCC>ACC	p.A1588T		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	1588	Extracellular (Potential).|4.|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		CCTTGACTGGCGCGGTACACA	0.542													23	47					0	0	0.003954	0	0	
LCT	3938	broad.mit.edu	37	2	136567187	136567187	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:136567187G>A	uc002tuu.1	-	8	2741	c.2730C>T	c.(2728-2730)GGC>GGT	p.G910G		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	910	3.|Extracellular (Potential).|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity	p.G910V(1)		ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		AAGAGGACACGCCCCACAGAA	0.527													8	74					0	0	0.003080	0	0	
CXCR4	7852	broad.mit.edu	37	2	136872597	136872597	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:136872597G>T	uc002tuz.2	-	2	996	c.901C>A	c.(901-903)CTC>ATC	p.L301I	CXCR4_uc002tuy.2_Missense_Mutation_p.L305I|CXCR4_uc010fnk.2_Missense_Mutation_p.L286I	NM_003467	NP_003458	P61073	CXCR4_HUMAN	chemokine (C-X-C motif) receptor 4 isoform b	301	Helical; Name=7.				activation of MAPK activity|apoptosis|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|entry into host cell|inflammatory response|initiation of viral infection|regulation of chemotaxis|response to hypoxia|response to virus	cell leading edge|cell surface|cytoplasmic membrane-bounded vesicle|integral to membrane|plasma membrane	actin binding|C-X-C chemokine receptor activity|coreceptor activity|myosin light chain binding|ubiquitin binding|ubiquitin protein ligase binding			upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.155)	Framycetin(DB00452)	AAAGCATAGAGGATGGGGTTC	0.507													10	621					2.17888e-05	2.29724e-05	0.006214	1	0	
THSD7B	80731	broad.mit.edu	37	2	137928508	137928508	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:137928508G>A	uc002tva.1	+	6	1630	c.1630G>A	c.(1630-1632)GGA>AGA	p.G544R	THSD7B_uc010zbj.1_Intron|THSD7B_uc002tvb.2_Missense_Mutation_p.G434R	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		GAATGACCGCGGTATGACCCA	0.488													9	40					0	0	0.008291	0	0	
HNMT	3176	broad.mit.edu	37	2	138762705	138762705	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:138762705C>T	uc002tvc.2	+	6	581	c.433C>T	c.(433-435)CTG>TTG	p.L145L	HNMT_uc002tvf.2_Silent_p.L145L	NM_006895	NP_008826	P50135	HNMT_HUMAN	histamine N-methyltransferase isoform 1	145					respiratory gaseous exchange	cytoplasm	histamine N-methyltransferase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.125)	Amodiaquine(DB00613)|Histamine Phosphate(DB00667)|Quinacrine(DB01103)	TTTCTAGATGCTGTATTATGT	0.368													26	79					0	0	0.006320	0	0	
LRP1B	53353	broad.mit.edu	37	2	141259398	141259398	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:141259398C>T	uc002tvj.1	-	55	9680	c.8708G>A	c.(8707-8709)TGC>TAC	p.C2903Y		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2903	Extracellular (Potential).|LDL-receptor class A 20.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		ACTGGGAATGCACCTGCCATT	0.373										TSP Lung(27;0.18)			7	25					0	0	0.000978	0	0	
LRP1B	53353	broad.mit.edu	37	2	141294197	141294197	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:141294197C>T	uc002tvj.1	-	46	8567	c.7595G>A	c.(7594-7596)GGC>GAC	p.G2532D		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2532	Extracellular (Potential).|LDL-receptor class A 11.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		GTGAGGAATGCCATCACAGGT	0.378										TSP Lung(27;0.18)			17	67					0	0	0.007413	0	0	
GTDC1	79712	broad.mit.edu	37	2	144765058	144765058	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:144765058C>T	uc002tvp.2	-	7	845	c.566G>A	c.(565-567)GGC>GAC	p.G189D	GTDC1_uc002tvo.2_Missense_Mutation_p.G189D|GTDC1_uc002tvq.2_Intron|GTDC1_uc002tvr.2_Missense_Mutation_p.G189D|GTDC1_uc010fnn.2_Missense_Mutation_p.G189D|GTDC1_uc002tvs.2_Missense_Mutation_p.G157D|GTDC1_uc010fno.2_Missense_Mutation_p.G60D|GTDC1_uc002tvt.1_Missense_Mutation_p.G189D	NM_001006636	NP_001006637	Q4AE62	GTDC1_HUMAN	glycosyltransferase-like domain containing 1	189					biosynthetic process		transferase activity, transferring glycosyl groups			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.0914)		TCCTTTAAGGCCGAGCATCTT	0.373													12	54					0	0	0.003163	0	0	
KIF5C	3800	broad.mit.edu	37	2	149853828	149853828	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:149853828C>T	uc010zbu.1	+	18	2442	c.2074C>T	c.(2074-2076)CGG>TGG	p.R692W	KIF5C_uc002tws.1_RNA|KIF5C_uc002twt.2_Missense_Mutation_p.R244W|KIF5C_uc002twu.1_5'Flank	NM_004522	NP_004513	O60282	KIF5C_HUMAN	kinesin family member 5C	692					microtubule-based movement|organelle organization	cytoplasm|kinesin complex|microtubule	ATP binding|microtubule motor activity			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.108)		ACATCTGACGCGGTTGCAGGA	0.433													14	41					0	0	0.004007	0	0	
RND3	390	broad.mit.edu	37	2	151326517	151326517	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:151326517C>A	uc002txe.2	-	5	963	c.719G>T	c.(718-720)AGC>ATC	p.S240I	RND3_uc002txf.2_Missense_Mutation_p.S239I|RND3_uc002txg.2_Missense_Mutation_p.S240I|RND3_uc010zbv.1_Missense_Mutation_p.A123S|RND3_uc010zbw.1_Missense_Mutation_p.S103I	NM_005168	NP_005159	P61587	RND3_HUMAN	ras homolog gene family, member E precursor	240					actin cytoskeleton organization|cell adhesion|small GTPase mediated signal transduction	Golgi membrane	GTP binding|GTPase activity			lung(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.106)		CACAGTGCAGCTCTTCGCTTT	0.418													5	66					3.59834e-05	3.78692e-05	0.001168	1	0	
NEB	4703	broad.mit.edu	37	2	152500390	152500390	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:152500390C>T	uc010fnx.2	-	57	8089	c.7898G>A	c.(7897-7899)TGC>TAC	p.C2633Y		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	2633	Nebulin 71.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		GTCGGGCAGGCATGTCCACTG	0.537													9	191					0	0	0.008291	0	0	
NEB	4703	broad.mit.edu	37	2	152536281	152536281	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:152536281G>A	uc010fnx.2	-	32	3400	c.3209C>T	c.(3208-3210)GCG>GTG	p.A1070V		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	1070	Nebulin 26.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		GATGGGAATCGCATCAGTTCT	0.468													15	55					0	0	0.004007	0	0	
NEB	4703	broad.mit.edu	37	2	152580820	152580820	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:152580820G>A	uc010fnx.2	-	8	757	c.566C>T	c.(565-567)GCC>GTC	p.A189V		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	189	Nebulin 4.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		AAGTTCAGGGGCATCAGGAGG	0.493													5	17					0	0	0.000602	0	0	
ARL5A	26225	broad.mit.edu	37	2	152663340	152663340	+	Silent	SNP	G	A	A	rs150433799		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:152663340G>A	uc002txx.1	-	5	805	c.486C>T	c.(484-486)GGC>GGT	p.G162G	ARL5A_uc010zcc.1_RNA|ARL5A_uc002txv.1_Silent_p.G125G|ARL5A_uc002txw.1_Silent_p.G125G	NM_012097	NP_036229	Q9Y689	ARL5A_HUMAN	ADP-ribosylation factor-like 5A isoform 1	162					small GTPase mediated signal transduction	intracellular	GTP binding				0				BRCA - Breast invasive adenocarcinoma(221;0.153)		CTTACCCCTCGCCAGTTAGAG	0.358													5	48					0	0	0.001168	0	0	
ACVR1	90	broad.mit.edu	37	2	158626897	158626897	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:158626897C>A	uc002tzm.3	-	8	1112	c.773G>T	c.(772-774)AGG>ATG	p.R258M	ACVR1_uc002tzn.3_Missense_Mutation_p.R258M|ACVR1_uc010fog.2_Missense_Mutation_p.R258M	NM_001111067	NP_001104537	Q04771	ACVR1_HUMAN	activin A receptor, type I precursor	258	Cytoplasmic (Potential).|Protein kinase.				BMP signaling pathway|G1/S transition of mitotic cell cycle|negative regulation of activin receptor signaling pathway|negative regulation of apoptosis|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	activin receptor complex	activin binding|ATP binding|follistatin binding|metal ion binding|protein homodimerization activity|SMAD binding|transforming growth factor beta binding			ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.104)	Adenosine triphosphate(DB00171)	ATTTTCATGCCTCAGCATCAC	0.453													10	177					1.58986e-06	1.6861e-06	0.008291	1	0	
PKP4	8502	broad.mit.edu	37	2	159477502	159477502	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:159477502A>G	uc002tzv.2	+	5	541	c.281A>G	c.(280-282)GAC>GGC	p.D94G	PKP4_uc002tzt.1_5'UTR|PKP4_uc002tzu.2_Missense_Mutation_p.D94G|PKP4_uc002tzw.2_Missense_Mutation_p.D94G|PKP4_uc002tzx.2_5'UTR|PKP4_uc002tzy.1_5'UTR|PKP4_uc002tzz.1_Missense_Mutation_p.D94G|PKP4_uc002uaa.2_5'UTR	NM_003628	NP_003619	Q99569	PKP4_HUMAN	plakophilin 4 isoform a	94					cell adhesion	desmosome	protein binding			ovary(5)|skin(2)	7						CTTGTTACAGACGTGCCAAAT	0.368										HNSCC(62;0.18)			8	110					0	0	0.004482	0	0	
PKP4	8502	broad.mit.edu	37	2	159526422	159526422	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:159526422C>T	uc002tzv.2	+	17	3179	c.2919C>T	c.(2917-2919)GGC>GGT	p.G973G	PKP4_uc002tzw.2_Silent_p.G973G|PKP4_uc002tzx.2_Silent_p.G630G|PKP4_uc002uaa.2_Silent_p.G825G|uc002uab.1_Intron|PKP4_uc002uac.2_Silent_p.G154G|PKP4_uc002uad.2_RNA|PKP4_uc002uae.1_Silent_p.G60G	NM_003628	NP_003619	Q99569	PKP4_HUMAN	plakophilin 4 isoform a	973	ARM 9.				cell adhesion	desmosome	protein binding			ovary(5)|skin(2)	7						AAGGCAGGGGCGACAGGCAAG	0.527										HNSCC(62;0.18)			9	19					0	0	0.008291	0	0	
TANC1	85461	broad.mit.edu	37	2	160050772	160050772	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:160050772G>A	uc002uag.2	+	17	3021	c.2747G>A	c.(2746-2748)AGC>AAC	p.S916N	TANC1_uc010zcm.1_Missense_Mutation_p.S908N|TANC1_uc010fom.1_Missense_Mutation_p.S722N	NM_033394	NP_203752	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and	916	ANK 1.					cell junction|postsynaptic density|postsynaptic membrane	binding			ovary(2)|central_nervous_system(1)	3						CAACAGGTGAGCCGTCTCCTG	0.468													4	56					0	0	0.000602	0	0	
BAZ2B	29994	broad.mit.edu	37	2	160304907	160304907	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:160304907C>T	uc002uao.2	-	5	700	c.348G>A	c.(346-348)TGG>TGA	p.W116*	BAZ2B_uc002uap.2_Nonsense_Mutation_p.W114*|BAZ2B_uc002uas.1_Nonsense_Mutation_p.W53*|BAZ2B_uc002uau.1_Nonsense_Mutation_p.W114*|BAZ2B_uc002uaq.1_Nonsense_Mutation_p.W44*|BAZ2B_uc002uat.3_Nonsense_Mutation_p.W53*|BAZ2B_uc010fop.1_Nonsense_Mutation_p.W114*	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	116					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						CAGTTGTTCGCCACCATTCTG	0.388													8	115					0	0	0.003080	0	0	
MARCH7	64844	broad.mit.edu	37	2	160605008	160605008	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:160605008C>T	uc002uax.2	+	5	1329	c.1207C>T	c.(1207-1209)CGA>TGA	p.R403*	MARCH7_uc010foq.2_Nonsense_Mutation_p.R403*|MARCH7_uc010zcn.1_Nonsense_Mutation_p.R347*|MARCH7_uc010for.2_Nonsense_Mutation_p.R365*|MARCH7_uc002uay.2_RNA	NM_022826	NP_073737	Q9H992	MARH7_HUMAN	axotrophin	403	Ser-rich.						ligase activity|zinc ion binding				0						TAGAAGGAGGCGAGAGGGAAG	0.378													27	90					0	0	0.004656	0	0	
PLA2R1	22925	broad.mit.edu	37	2	160832609	160832609	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:160832609C>T	uc002ube.1	-	17	2772	c.2565G>A	c.(2563-2565)GAG>GAA	p.E855E	PLA2R1_uc010zcp.1_Silent_p.E855E|PLA2R1_uc002ubf.2_Silent_p.E855E	NM_007366	NP_031392	Q13018	PLA2R_HUMAN	phospholipase A2 receptor 1 isoform 1 precursor	855	Extracellular (Potential).|C-type lectin 5.				endocytosis	extracellular space|integral to plasma membrane	receptor activity|sugar binding			skin(2)|ovary(1)	3						TGAATTCTTGCTCATGTGCAG	0.423													36	90					0	0	0.004289	0	0	
RBMS1	5937	broad.mit.edu	37	2	161349809	161349809	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:161349809C>T	uc002ubo.2	-	1	510	c.66G>A	c.(64-66)CTG>CTA	p.L22L	RBMS1_uc002ubn.2_Silent_p.L22L|RBMS1_uc002ubi.3_Silent_p.L22L|RBMS1_uc002ubm.2_5'UTR|RBMS1_uc002ubp.2_Silent_p.L22L|RBMS1_uc010fox.2_Silent_p.L22L	NM_016836	NP_058520	P29558	RBMS1_HUMAN	RNA binding motif, single stranded interacting	22					DNA replication|RNA processing	nucleus	double-stranded DNA binding|nucleotide binding|protein binding|RNA binding|single-stranded DNA binding				0						CCTTGGCTTGCAGATACTGGG	0.677													4	12					0	0	0.003080	0	0	
TANK	10010	broad.mit.edu	37	2	162081195	162081195	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:162081195G>A	uc002ubr.1	+	6	616	c.458G>A	c.(457-459)TGC>TAC	p.C153Y	TANK_uc002ubs.2_Missense_Mutation_p.C153Y	NM_004180	NP_004171	Q92844	TANK_HUMAN	TRAF interacting protein TANK isoform a	153						cytosol	metal ion binding|protein binding			ovary(1)	1						CATAAAATATGCATGCTAGCA	0.289													6	74					0	0	0.004482	0	0	
DPP4	1803	broad.mit.edu	37	2	162891760	162891760	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:162891760C>T	uc002ubz.2	-	9	1249	c.688G>A	c.(688-690)GAC>AAC	p.D230N	DPP4_uc010fpb.2_5'UTR	NM_001935	NP_001926	P27487	DPP4_HUMAN	dipeptidylpeptidase IV	230	Extracellular (Potential).				cell adhesion|endothelial cell migration|negative regulation of extracellular matrix disassembly|positive regulation of cell proliferation|proteolysis|regulation of cell-cell adhesion mediated by integrin|response to hypoxia|T cell activation|T cell costimulation	apical plasma membrane|cell surface|endocytic vesicle|extracellular region|integral to membrane|invadopodium membrane|lamellipodium membrane|membrane raft	aminopeptidase activity|dipeptidyl-peptidase activity|protease binding|protein homodimerization activity|receptor activity|receptor binding|serine-type endopeptidase activity			ovary(3)	3					Sitagliptin(DB01261)	ACTTCTGTGTCGTTAAATTGG	0.443													7	89					0	0	0.001984	0	0	
GCA	25801	broad.mit.edu	37	2	163204223	163204223	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:163204223T>A	uc002ucg.2	+	2	339	c.163T>A	c.(163-165)TAT>AAT	p.Y55N	GCA_uc010zcu.1_Missense_Mutation_p.Y36N	NM_012198	NP_036330	P28676	GRAN_HUMAN	grancalcin, EF-hand calcium binding protein	55	EF-hand 1.				cellular membrane fusion	cytoplasm|plasma membrane	calcium ion binding|protein homodimerization activity				0						TGACTCCGTGTATACTTACTT	0.418													4	58					0	0	0.009096	0	0	
GRB14	2888	broad.mit.edu	37	2	165353759	165353759	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:165353759C>A	uc002ucl.2	-	11	1797	c.1256G>T	c.(1255-1257)AGC>ATC	p.S419I	GRB14_uc010zcv.1_Missense_Mutation_p.S332I|GRB14_uc002ucm.2_RNA	NM_004490	NP_004481	Q14449	GRB14_HUMAN	growth factor receptor-bound protein 14	419					blood coagulation|leukocyte migration	cytosol|endosome membrane|Golgi membrane|microsome|plasma membrane	SH3/SH2 adaptor activity			ovary(5)|upper_aerodigestive_tract(1)|lung(1)	7						GGCAGTGGGGCTACCGTGAGT	0.423													13	46					0.00316338	0.00328415	0.003163	1	0	
COBLL1	22837	broad.mit.edu	37	2	165548787	165548787	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:165548787G>A	uc010zcw.1	-	16	3683	c.3559C>T	c.(3559-3561)CGA>TGA	p.R1187*	COBLL1_uc002ucp.2_Nonsense_Mutation_p.R1120*|COBLL1_uc002ucq.2_Nonsense_Mutation_p.R1082*|COBLL1_uc010zcx.1_Nonsense_Mutation_p.R1128*|COBLL1_uc002ucn.2_Nonsense_Mutation_p.R548*|COBLL1_uc002uco.2_Nonsense_Mutation_p.R851*	NM_014900	NP_055715	Q53SF7	COBL1_HUMAN	COBL-like 1	1158	WH2.									ovary(2)|pancreas(1)	3						AAACTCTGTCGCATCTGTTCT	0.443													8	39					0	0	0.004482	0	0	
COBLL1	22837	broad.mit.edu	37	2	165550894	165550894	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:165550894C>T	uc010zcw.1	-	15	3447	c.3323G>A	c.(3322-3324)CGC>CAC	p.R1108H	COBLL1_uc002ucp.2_Missense_Mutation_p.R1041H|COBLL1_uc002ucq.2_Missense_Mutation_p.R1003H|COBLL1_uc010zcx.1_Missense_Mutation_p.R1049H|COBLL1_uc002ucn.2_Missense_Mutation_p.R469H|COBLL1_uc002uco.2_Missense_Mutation_p.R772H	NM_014900	NP_055715	Q53SF7	COBL1_HUMAN	COBL-like 1	1079										ovary(2)|pancreas(1)	3						TGACTCGGTGCGCTCTTTACT	0.473													14	48					0	0	0.002450	0	0	
SCN3A	6328	broad.mit.edu	37	2	165946823	165946823	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:165946823T>C	uc002ucx.2	-	28	6332	c.5840A>G	c.(5839-5841)GAC>GGC	p.D1947G	SCN3A_uc010zcy.1_Missense_Mutation_p.D430G|SCN3A_uc002ucy.2_Missense_Mutation_p.D1898G|SCN3A_uc002ucz.2_Missense_Mutation_p.D1898G	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	1947						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	ATTTAGTTTGTCAATAATCAT	0.348													15	37					0	0	0.006122	0	0	
SCN3A	6328	broad.mit.edu	37	2	165997321	165997321	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:165997321C>T	uc002ucx.2	-	13	2351	c.1859G>A	c.(1858-1860)CGA>CAA	p.R620Q	SCN3A_uc002ucy.2_Missense_Mutation_p.R620Q|SCN3A_uc002ucz.2_Missense_Mutation_p.R620Q|SCN3A_uc002uda.1_Missense_Mutation_p.R489Q|SCN3A_uc002udb.1_Missense_Mutation_p.R489Q	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	620						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	ACTGTTGCGTCGCTCTCCATG	0.498													24	44					0	0	0.006320	0	0	
SCN2A	6326	broad.mit.edu	37	2	166152416	166152416	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:166152416G>A	uc002udc.2	+	2	373	c.83G>A	c.(82-84)CGC>CAC	p.R28H	SCN2A_uc002udd.2_Missense_Mutation_p.R28H|SCN2A_uc002ude.2_Missense_Mutation_p.R28H	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	28					myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	ATTGAACAACGCATTGCAGAA	0.488													9	35					0	0	0.006214	0	0	
SCN2A	6326	broad.mit.edu	37	2	166246006	166246006	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:166246006C>T	uc002udc.2	+	27	5980	c.5690C>T	c.(5689-5691)ACG>ATG	p.T1897M	SCN2A_uc002udd.2_Missense_Mutation_p.T1897M|SCN2A_uc002ude.2_Missense_Mutation_p.T1897M	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	1897					myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	GAGCCCATTACGACCACGTTG	0.453													14	57					0	0	0.004007	0	0	
CSRNP3	80034	broad.mit.edu	37	2	166514297	166514297	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:166514297C>T	uc002udf.2	+	5	551	c.175C>T	c.(175-177)CGA>TGA	p.R59*	CSRNP3_uc002udg.2_Nonsense_Mutation_p.R59*	NM_024969	NP_079245	Q8WYN3	CSRN3_HUMAN	cysteine-serine-rich nuclear protein 3	59					apoptosis|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|large_intestine(1)|skin(1)	5						AAGGGAGAAACGACTGAGGAC	0.468													5	56					0	0	0.001168	0	0	
TTC21B	79809	broad.mit.edu	37	2	166797676	166797676	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:166797676G>A	uc002udk.2	-	6	704	c.571C>T	c.(571-573)CGC>TGC	p.R191C	TTC21B_uc002udl.2_Missense_Mutation_p.R191C|uc002udm.1_Intron	NM_024753	NP_079029	Q7Z4L5	TT21B_HUMAN	tetratricopeptide repeat domain 21B	191	TPR 3.					cilium axoneme|cytoplasm|cytoskeleton	binding			ovary(2)|pancreas(2)|breast(1)	5						TAATTCTGGCGCATCTCAAGG	0.408													18	47					0	0	0.007413	0	0	
SCN1A	6323	broad.mit.edu	37	2	166900484	166900484	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:166900484G>A	uc010zcz.1	-	11	1756	c.1738C>T	c.(1738-1740)CGA>TGA	p.R580*	SCN1A_uc002udo.3_Nonsense_Mutation_p.R449*|SCN1A_uc010fpk.2_Nonsense_Mutation_p.R449*	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	580						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	TCCTTTGCTCGCCCTCTAAAG	0.478													21	74					0	0	0.002780	0	0	
SCN9A	6335	broad.mit.edu	37	2	167133677	167133677	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:167133677C>T	uc010fpl.2	-	16	2998	c.2657G>A	c.(2656-2658)TGC>TAC	p.C886Y	uc002udp.2_RNA	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	897	II.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	ATTGATCTTGCAGACACATTC	0.502													54	134					0	0	0.003610	0	0	
SCN9A	6335	broad.mit.edu	37	2	167133746	167133746	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:167133746G>A	uc010fpl.2	-	16	2929	c.2588C>T	c.(2587-2589)GCC>GTC	p.A863V	uc002udp.2_RNA	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	874	II.|Helical; Name=S5 of repeat II; (Potential).					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	GACGATGATGGCCAACACTAA	0.463													16	170					0	0	0.004007	0	0	
SCN7A	6332	broad.mit.edu	37	2	167298020	167298020	+	Silent	SNP	C	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:167298020C>G	uc002udu.1	-	14	2170	c.2043G>C	c.(2041-2043)GTG>GTC	p.V681V	SCN7A_uc010fpm.1_RNA	NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	681					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						GAATTCGGAACACATTCAGGA	0.443													24	72					0	0	0.008361	0	0	
XIRP2	129446	broad.mit.edu	37	2	168099163	168099163	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:168099163A>G	uc002udx.2	+	8	1279	c.1261A>G	c.(1261-1263)AAG>GAG	p.K421E	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.K246E|XIRP2_uc010fpq.2_Missense_Mutation_p.K199E|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	246					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						CAGCCAGAGGAAGGAAACATC	0.413													5	108					0	0	0.001168	0	0	
XIRP2	129446	broad.mit.edu	37	2	168107993	168107993	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:168107993T>C	uc002udx.2	+	8	10109	c.10091T>C	c.(10090-10092)ATA>ACA	p.I3364T	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.I3189T|XIRP2_uc010fpq.2_Missense_Mutation_p.I3142T|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	3189					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						AACCATAACATACAACAAGAA	0.358													32	97					0	0	0.003755	0	0	
LRP2	4036	broad.mit.edu	37	2	170026232	170026232	+	Missense_Mutation	SNP	G	A	A	rs142613924		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:170026232G>A	uc002ues.2	-	60	11690	c.11477C>T	c.(11476-11478)GCG>GTG	p.A3826V		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3826	Extracellular (Potential).|LDL-receptor class A 33.				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	TTCATCAGACGCATCCAAACA	0.453													22	88					0	0	0.003330	0	0	
LRP2	4036	broad.mit.edu	37	2	170032999	170032999	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:170032999C>T	uc002ues.2	-	54	10706	c.10493G>A	c.(10492-10494)CGC>CAC	p.R3498H		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3498	Extracellular (Potential).|EGF-like 13.				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	CTGAAGGGTGCGGAAGTCATC	0.537													10	38					0	0	0.001855	0	0	
LRP2	4036	broad.mit.edu	37	2	170037982	170037982	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:170037982G>A	uc002ues.2	-	52	10358	c.10145C>T	c.(10144-10146)GCA>GTA	p.A3382V		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3382	LDL-receptor class B 33.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	GTGGGCATCTGCCCAGTAGAG	0.408													27	80					0	0	0.008361	0	0	
LRP2	4036	broad.mit.edu	37	2	170048452	170048452	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:170048452G>A	uc002ues.2	-	48	9135	c.8922C>T	c.(8920-8922)GGC>GGT	p.G2974G		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	2974	LDL-receptor class A 22.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	AATCCACATCGCCATCACAGA	0.478													18	47					0	0	0.008871	0	0	
LRP2	4036	broad.mit.edu	37	2	170058336	170058336	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:170058336G>A	uc002ues.2	-	44	8467	c.8254C>T	c.(8254-8256)CGA>TGA	p.R2752*		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	2752	Extracellular (Potential).|LDL-receptor class A 17.				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	TGGACACATCGCCCATTGGCA	0.478													11	74					0	0	0.002450	0	0	
LRP2	4036	broad.mit.edu	37	2	170129448	170129448	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:170129448C>T	uc002ues.2	-	15	2318	c.2105G>A	c.(2104-2106)CGC>CAC	p.R702H	LRP2_uc010zdf.1_Missense_Mutation_p.R633H	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	702	EGF-like 3.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	AATGCAGTGGCGCTCATCTGT	0.483													100	230					0	0	0.003610	0	0	
KBTBD10	10324	broad.mit.edu	37	2	170344508	170344508	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:170344508C>T	uc010zdh.1	+	5	328	c.270C>T	c.(268-270)GGC>GGT	p.G90G	BBS5_uc002uet.2_Silent_p.G90G|BBS5_uc010fpw.2_Silent_p.G90G	NM_152384	NP_689597	O60662	KBTBA_HUMAN	Bardet-Biedl syndrome 5	Error:Variant_position_missing_in_O60662_after_alignment					striated muscle contraction	centrosome|nucleolus|plasma membrane|pseudopodium|ruffle					0						AATTACGAGGCCAAACTGAAG	0.299													36	93					0	0	0.004289	0	0	
MYO3B	140469	broad.mit.edu	37	2	171264268	171264268	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:171264268C>A	uc002ufy.2	+	22	2707	c.2564C>A	c.(2563-2565)ACT>AAT	p.T855N	MYO3B_uc002ufv.2_Missense_Mutation_p.T842N|MYO3B_uc010fqb.1_Missense_Mutation_p.T842N|MYO3B_uc002ufz.2_Missense_Mutation_p.T855N|MYO3B_uc002ufw.2_RNA|MYO3B_uc002ufx.2_RNA|MYO3B_uc002ugb.2_RNA	NM_138995	NP_620482	Q8WXR4	MYO3B_HUMAN	myosin IIIB isoform 2	855	Myosin head-like.				response to stimulus|visual perception	cytoplasm|myosin complex	actin binding|ATP binding|motor activity|protein serine/threonine kinase activity			lung(8)|ovary(6)|skin(4)|central_nervous_system(1)	19						AATAGAGACACTCTCCCTGCC	0.458													37	97					1.17962e-10	1.27012e-10	0.008740	1	0	
SP5	389058	broad.mit.edu	37	2	171573002	171573002	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:171573002G>A	uc002uge.2	+	2	451	c.285G>A	c.(283-285)ACG>ACA	p.T95T	LOC440925_uc002ugd.2_5'Flank	NM_001003845	NP_001003845	Q6BEB4	SP5_HUMAN	Sp5 transcription factor	95					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TGGGGCTGACGCCGCAGAAGA	0.716													3	4					0	0	0.009096	0	0	
SLC25A12	8604	broad.mit.edu	37	2	172641950	172641950	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:172641950C>T	uc002uhh.2	-	18	1960	c.1871G>A	c.(1870-1872)CGC>CAC	p.R624H	SLC25A12_uc010fqh.2_Missense_Mutation_p.R517H	NM_003705	NP_003696	O75746	CMC1_HUMAN	solute carrier family 25, member 12	624					gluconeogenesis|malate-aspartate shuttle|response to calcium ion	integral to membrane|mitochondrial inner membrane	calcium ion binding|L-aspartate transmembrane transporter activity|L-glutamate transmembrane transporter activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.216)		L-Aspartic Acid(DB00128)	GTCTGCAATGCGTGACTTAGG	0.502													23	80					0	0	0.003330	0	0	
DLX2	1746	broad.mit.edu	37	2	172966308	172966308	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:172966308C>T	uc002uhn.2	-	2	679	c.467G>A	c.(466-468)CGC>CAC	p.R156H	DLX2_uc010zdx.1_Missense_Mutation_p.R156H	NM_004405	NP_004396	Q07687	DLX2_HUMAN	distal-less homeobox 2	156	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.216)			GTAGATGGTGCGGGGTTTCCG	0.547													16	46					0	0	0.001882	0	0	
PDK1	5163	broad.mit.edu	37	2	173429383	173429383	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:173429383G>A	uc002uhr.2	+	4	663	c.563G>A	c.(562-564)CGC>CAC	p.R188H	PDK1_uc010zdz.1_Missense_Mutation_p.R33H|PDK1_uc010zea.1_RNA|PDK1_uc002uhq.1_Missense_Mutation_p.R208H|PDK1_uc002uhs.2_Missense_Mutation_p.R188H|PDK1_uc010zeb.1_Missense_Mutation_p.R208H	NM_002610	NP_002601	Q15118	PDK1_HUMAN	pyruvate dehydrogenase kinase 1 precursor	188	Histidine kinase.				glucose metabolic process|peptidyl-histidine phosphorylation|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate|small GTPase mediated signal transduction	mitochondrial matrix	ATP binding|pyruvate dehydrogenase (acetyl-transferring) kinase activity|two-component sensor activity			lung(3)|central_nervous_system(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.12)			TACATGAGTCGCATTTCAATT	0.398									Autosomal_Dominant_Polycystic_Kidney_Disease				17	64					0	0	0.004007	0	0	
SP3	6670	broad.mit.edu	37	2	174774752	174774752	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:174774752C>T	uc002uig.2	-	7	2427	c.2263G>A	c.(2263-2265)GCC>ACC	p.A755T	SP3_uc002uie.2_Missense_Mutation_p.A687T|SP3_uc002uif.2_Missense_Mutation_p.A702T|SP3_uc010zel.1_Missense_Mutation_p.A752T	NM_003111	NP_003102	Q02447	SP3_HUMAN	Sp3 transcription factor isoform 1	755					negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	PML body	protein binding|zinc ion binding		EWSR1/SP3(3)	soft_tissue(3)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.185)			TTGCTGGTGGCGGAAGTATTA	0.388													7	87					0	0	0.004482	0	0	
GPR155	151556	broad.mit.edu	37	2	175346233	175346233	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:175346233T>C	uc002uit.2	-	3	843	c.452A>G	c.(451-453)TAC>TGC	p.Y151C	GPR155_uc002uiu.2_Missense_Mutation_p.Y151C|GPR155_uc002uiv.2_Missense_Mutation_p.Y151C|GPR155_uc010fqs.2_Missense_Mutation_p.Y151C	NM_001033045	NP_001028217	Q7Z3F1	GP155_HUMAN	G protein-coupled receptor 155 isoform 9	151	Helical; (Potential).				intracellular signal transduction|transmembrane transport	integral to membrane				ovary(1)	1						ACCTATAGGGTATCCCAATGC	0.294													7	191					0	0	0.001984	0	0	
KIAA1715	80856	broad.mit.edu	37	2	176794704	176794704	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:176794704C>T	uc002ukc.1	-	13	1471	c.1278G>A	c.(1276-1278)ACG>ACA	p.T426T	KIAA1715_uc010zer.1_Silent_p.T457T|KIAA1715_uc010fqw.1_Silent_p.T492T|KIAA1715_uc010zes.1_Silent_p.T428T|KIAA1715_uc002ukd.1_Silent_p.T303T|KIAA1715_uc010zet.1_RNA	NM_030650	NP_085153	Q9C0E8	LNP_HUMAN	Lunapark	426	Cytoplasmic (Potential).					integral to membrane	protein binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0793)			ACTACTCTGCCGTCAAAGATT	0.428													14	69					0	0	0.002450	0	0	
HOXD13	3239	broad.mit.edu	37	2	176958345	176958345	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:176958345T>C	uc002ukf.1	+	1	814	c.727T>C	c.(727-729)TAC>CAC	p.Y243H		NM_000523	NP_000514	P35453	HXD13_HUMAN	homeobox D13	243					skeletal system development|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding			lung(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0526)|READ - Rectum adenocarcinoma(9;0.0678)		CAGCCAGGTGTACTGCACCAA	0.612			T	NUP98	AML*								5	18					0	0	0.000602	0	0	
HOXD10	3236	broad.mit.edu	37	2	176982113	176982113	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:176982113C>T	uc002ukj.2	+	1	622	c.552C>T	c.(550-552)GGC>GGT	p.G184G		NM_002148	NP_002139	P28358	HXD10_HUMAN	homeobox D10	184						nucleus	sequence-specific DNA binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0226)|READ - Rectum adenocarcinoma(9;0.0556)		ACCCTCGTGGCGCGGCCAAGC	0.587													10	19					0	0	0.001855	0	0	
HOXD3	3232	broad.mit.edu	37	2	177036882	177036882	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:177036882G>A	uc002ukt.1	+	3	1355	c.1179G>A	c.(1177-1179)GCG>GCA	p.A393A		NM_006898	NP_008829	P31249	HXD3_HUMAN	homeobox D3	393					anterior/posterior pattern formation|cartilage development|cell-matrix adhesion|embryonic skeletal system morphogenesis|Notch signaling pathway|positive regulation of gene expression|positive regulation of neuron differentiation|thyroid gland development		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.00569)|Epithelial(96;0.0864)|all cancers(119;0.226)	Colorectal(32;0.247)		GTTGCGCCGCGCAGATTCCAG	0.657													7	18					0	0	0.001984	0	0	
PDE11A	50940	broad.mit.edu	37	2	178879125	178879125	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:178879125G>A	uc002ulq.2	-	2	1293	c.975C>T	c.(973-975)TGC>TGT	p.C325C	PDE11A_uc002ulr.2_Silent_p.C75C|PDE11A_uc002ult.1_Silent_p.C75C	NM_016953	NP_058649	Q9HCR9	PDE11_HUMAN	phosphodiesterase 11A isoform 4	325	GAF 1.				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(3)|large_intestine(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00121)|Epithelial(96;0.00455)|all cancers(119;0.02)			GGATAGGCATGCACAATAATG	0.378									Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial				21	51					0	0	0.002299	0	0	
PDE11A	50940	broad.mit.edu	37	2	178936644	178936644	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:178936644G>A	uc002ulq.2	-	1	839	c.521C>T	c.(520-522)GCG>GTG	p.A174V	PDE11A_uc002ulr.2_Intron|PDE11A_uc002ult.1_Intron	NM_016953	NP_058649	Q9HCR9	PDE11_HUMAN	phosphodiesterase 11A isoform 4	174					platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(3)|large_intestine(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00121)|Epithelial(96;0.00455)|all cancers(119;0.02)			TTCCAGCAGCGCACTGAGAAT	0.562									Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial				22	57					0	0	0.001882	0	0	
OSBPL6	114880	broad.mit.edu	37	2	179214085	179214085	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179214085G>A	uc002ulx.2	+	12	1500	c.1122G>A	c.(1120-1122)CTG>CTA	p.L374L	OSBPL6_uc002ulw.2_Silent_p.L343L|OSBPL6_uc002uly.2_Silent_p.L399L|OSBPL6_uc010zfe.1_Silent_p.L343L|OSBPL6_uc002ulz.2_Silent_p.L374L|OSBPL6_uc002uma.2_Silent_p.L378L	NM_032523	NP_115912	Q9BZF3	OSBL6_HUMAN	oxysterol-binding protein-like protein 6 isoform	374					lipid transport		lipid binding			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00578)|Epithelial(96;0.00847)|all cancers(119;0.0335)			ATACAAAGCTGCAAGAAGAAT	0.398													31	108					0	0	0.002836	0	0	
PRKRA	8575	broad.mit.edu	37	2	179300958	179300958	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179300958A>G	uc002umf.2	-	7	899	c.698T>C	c.(697-699)CTC>CCC	p.L233P	PRKRA_uc002umc.2_Missense_Mutation_p.L65P|PRKRA_uc002umd.2_Missense_Mutation_p.L208P|PRKRA_uc002ume.2_Missense_Mutation_p.L222P|PRKRA_uc002umg.2_Missense_Mutation_p.L120P|PRKRA_uc002umh.1_5'Flank	NM_003690	NP_003681	O75569	PRKRA_HUMAN	protein kinase, interferon-inducible double	233	Sufficient for self-association and interaction with TARBP2.				immune response|negative regulation of cell proliferation|production of siRNA involved in RNA interference|response to virus	perinuclear region of cytoplasm	double-stranded RNA binding|enzyme activator activity|protein homodimerization activity			central_nervous_system(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.00406)|Epithelial(96;0.00634)|all cancers(119;0.0265)			AATACTAAGGAGGCTTCTTTT	0.338													5	197					0	0	0.001168	0	0	
PRKRA	8575	broad.mit.edu	37	2	179312289	179312289	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179312289G>A	uc002umf.2	-	3	461	c.260C>T	c.(259-261)GCG>GTG	p.A87V	PRKRA_uc002umd.2_Missense_Mutation_p.A62V|PRKRA_uc002ume.2_Missense_Mutation_p.A76V|PRKRA_uc002umg.2_5'UTR	NM_003690	NP_003681	O75569	PRKRA_HUMAN	protein kinase, interferon-inducible double	87	Sufficient for self-association and interaction with TARBP2.|DRBM 1.				immune response|negative regulation of cell proliferation|production of siRNA involved in RNA interference|response to virus	perinuclear region of cytoplasm	double-stranded RNA binding|enzyme activator activity|protein homodimerization activity			central_nervous_system(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.00406)|Epithelial(96;0.00634)|all cancers(119;0.0265)			TCTATGTTTCGCCAGCTTCTT	0.353													5	64					0	0	0.000602	0	0	
DFNB59	494513	broad.mit.edu	37	2	179325727	179325727	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179325727T>C	uc002umi.3	+	7	1141	c.785T>C	c.(784-786)GTC>GCC	p.V262A	DFNB59_uc002umj.3_Missense_Mutation_p.V262A	NM_001042702	NP_001036167	Q0ZLH3	PJVK_HUMAN	deafness, autosomal recessive 59	262					sensory perception of sound						0			OV - Ovarian serous cystadenocarcinoma(117;0.00406)|Epithelial(96;0.0159)|all cancers(119;0.0564)			GTGATGGATGTCATTTCTCGT	0.333													12	167					0	0	0.001855	0	0	
TTN	7273	broad.mit.edu	37	2	179393094	179393094	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179393094G>A	uc010zfg.1	-	310	99804	c.99580C>T	c.(99580-99582)CGA>TGA	p.R33194*	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Nonsense_Mutation_p.R26889*|TTN_uc010zfi.1_Nonsense_Mutation_p.R26822*|TTN_uc010zfj.1_Nonsense_Mutation_p.R26697*|TTN_uc002umq.2_Nonsense_Mutation_p.R211*	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	34121							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GATGCATTTCGGATTTCAAGG	0.393													32	47					0	0	0.004289	0	0	
TTN	7273	broad.mit.edu	37	2	179404438	179404438	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179404438G>A	uc010zfg.1	-	301	90874	c.90650C>T	c.(90649-90651)GCT>GTT	p.A30217V	uc002umo.2_RNA|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.A23912V|TTN_uc010zfi.1_Missense_Mutation_p.A23845V|TTN_uc010zfj.1_Missense_Mutation_p.A23720V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	31144							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GATGTAGACAGCCTTCTTGCC	0.488													12	128					0	0	0.002450	0	0	
TTN	7273	broad.mit.edu	37	2	179412259	179412259	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179412259C>T	uc010zfg.1	-	288	86614	c.86390G>A	c.(86389-86391)CGC>CAC	p.R28797H	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R22492H|TTN_uc010zfi.1_Missense_Mutation_p.R22425H|TTN_uc010zfj.1_Missense_Mutation_p.R22300H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	29724							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AATTTGAGTGCGCTTGACACT	0.408													19	37					0	0	0.008871	0	0	
TTN	7273	broad.mit.edu	37	2	179417232	179417232	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179417232T>C	uc010zfg.1	-	284	82915	c.82691A>G	c.(82690-82692)GAC>GGC	p.D27564G	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.D21259G|TTN_uc010zfi.1_Missense_Mutation_p.D21192G|TTN_uc010zfj.1_Missense_Mutation_p.D21067G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	28491							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATCTGACAGGTCAACTTCAGG	0.433													17	55					0	0	0.008871	0	0	
TTN	7273	broad.mit.edu	37	2	179417976	179417976	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179417976G>A	uc010zfg.1	-	284	82171	c.81947C>T	c.(81946-81948)GCC>GTC	p.A27316V	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.A21011V|TTN_uc010zfi.1_Missense_Mutation_p.A20944V|TTN_uc010zfj.1_Missense_Mutation_p.A20819V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	28243							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GCTGTATCTGGCATCACTGCC	0.403													58	128					0	0	0.003610	0	0	
TTN	7273	broad.mit.edu	37	2	179422671	179422671	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179422671C>A	uc010zfg.1	-	277	79930	c.79706G>T	c.(79705-79707)AGG>ATG	p.R26569M	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R20264M|TTN_uc010zfi.1_Missense_Mutation_p.R20197M|TTN_uc010zfj.1_Missense_Mutation_p.R20072M	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	27496							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGGACCAGGCCTGTCTAGCAC	0.448													68	196					2.51111e-31	2.75894e-31	0.003610	1	0	
TTN	7273	broad.mit.edu	37	2	179444834	179444834	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179444834G>A	uc010zfg.1	-	267	59700	c.59476C>T	c.(59476-59478)CGT>TGT	p.R19826C	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R13521C|TTN_uc010zfi.1_Missense_Mutation_p.R13454C|TTN_uc010zfj.1_Missense_Mutation_p.R13329C|uc002umv.1_3'UTR	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	20753							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCTGCATCACGTTTTTGTACC	0.443													32	100					0	0	0.002836	0	0	
TTN	7273	broad.mit.edu	37	2	179498195	179498195	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179498195G>A	uc010zfg.1	-	181	35411	c.35187C>T	c.(35185-35187)GGC>GGT	p.G11729G	TTN_uc010zfh.1_Silent_p.G5424G|TTN_uc010zfi.1_Silent_p.G5357G|TTN_uc010zfj.1_Silent_p.G5232G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	12656							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ACACATATTCGCCTTTATCTT	0.428													14	46					0	0	0.001855	0	0	
TTN	7273	broad.mit.edu	37	2	179530112	179530112	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179530112C>T	uc010zfk.1	-	10	1021	c.473G>A	c.(472-474)CGT>CAT	p.R158H	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron|TTN_uc010fre.1_Intron			Q8WZ42	TITIN_HUMAN	SubName: Full=Titin; Flags: Fragment;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ACTTTTCATACGTGGAGTTTC	0.348													12	145					0	0	0.001855	0	0	
TTN	7273	broad.mit.edu	37	2	179549074	179549074	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179549074G>A	uc010zfg.1	-	129	29197	c.28973C>T	c.(28972-28974)GCG>GTG	p.A9658V	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.A6319V|TTN_uc010fre.1_Intron	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	10585							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTTTGGAGGCGCCTCTTTTTT	0.393													8	21					0	0	0.004482	0	0	
TTN	7273	broad.mit.edu	37	2	179575896	179575896	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179575896G>A	uc010zfg.1	-	94	24559	c.24335C>T	c.(24334-24336)GCC>GTC	p.A8112V	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.A4773V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	9039							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATTGAGTGTGGCTGTATTGTC	0.448													5	111					0	0	0.000602	0	0	
TTN	7273	broad.mit.edu	37	2	179582535	179582535	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179582535G>A	uc010zfg.1	-	84	21558	c.21334C>T	c.(21334-21336)CGC>TGC	p.R7112C	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.R3773C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	8039							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GGAAGTTTGCGCGCTGTAAAG	0.378													17	48					0	0	0.004990	0	0	
TTN	7273	broad.mit.edu	37	2	179597674	179597674	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179597674C>T	uc010zfg.1	-	52	12721	c.12497G>A	c.(12496-12498)GGC>GAC	p.G4166D	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.G827D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	5093							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGAGGCTGTGCCTTCCACAAA	0.488													13	20					0	0	0.001855	0	0	
TTN	7273	broad.mit.edu	37	2	179604723	179604723	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179604723C>A	uc010zfh.1	-	46	12948	c.12724G>T	c.(12724-12726)GGT>TGT	p.G4242C	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Missense_Mutation_p.G4175C|TTN_uc010zfj.1_Missense_Mutation_p.G4050C|TTN_uc002umz.1_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GAGAAAAGACCTGGCTGCTCG	0.473													14	52					7.41877e-09	7.94206e-09	0.001882	1	0	
TTN	7273	broad.mit.edu	37	2	179633400	179633400	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179633400C>A	uc010zfg.1	-	38	9387	c.9163G>T	c.(9163-9165)GCT>TCT	p.A3055S	TTN_uc010zfh.1_Missense_Mutation_p.A3009S|TTN_uc010zfi.1_Missense_Mutation_p.A3009S|TTN_uc010zfj.1_Missense_Mutation_p.A3009S|TTN_uc002unb.2_Missense_Mutation_p.A3055S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	3055							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GAAACCATACCTTCCACATAA	0.313													4	26					1.23904e-05	1.30714e-05	0.000602	1	0	
TTN	7273	broad.mit.edu	37	2	179640598	179640598	+	Missense_Mutation	SNP	C	T	T	rs144135510	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179640598C>T	uc010zfg.1	-	28	6217	c.5993G>A	c.(5992-5994)CGC>CAC	p.R1998H	TTN_uc010zfh.1_Missense_Mutation_p.R1952H|TTN_uc010zfi.1_Missense_Mutation_p.R1952H|TTN_uc010zfj.1_Missense_Mutation_p.R1952H|TTN_uc002unb.2_Missense_Mutation_p.R1998H|uc002unc.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1998							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GAATTTACTGCGCAGCTCTTC	0.453													49	97					0	0	0.003214	0	0	
TTN	7273	broad.mit.edu	37	2	179648867	179648867	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179648867A>G	uc010zfg.1	-	16	2929	c.2705T>C	c.(2704-2706)GTA>GCA	p.V902A	TTN_uc010zfh.1_Missense_Mutation_p.V856A|TTN_uc010zfi.1_Missense_Mutation_p.V856A|TTN_uc010zfj.1_Missense_Mutation_p.V856A|TTN_uc002unb.2_Missense_Mutation_p.V902A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	902							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GCTCACCCCTACTTCCTTTTT	0.547													5	87					0	0	0.000602	0	0	
TTN	7273	broad.mit.edu	37	2	179648990	179648990	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179648990G>A	uc010zfg.1	-	16	2806	c.2582C>T	c.(2581-2583)GCT>GTT	p.A861V	TTN_uc010zfh.1_Missense_Mutation_p.A815V|TTN_uc010zfi.1_Missense_Mutation_p.A815V|TTN_uc010zfj.1_Missense_Mutation_p.A815V|TTN_uc002unb.2_Missense_Mutation_p.A861V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	861							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CACAGTAGGAGCCTTCACCGA	0.493													20	50					0	0	0.001882	0	0	
TTN	7273	broad.mit.edu	37	2	179665162	179665162	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179665162G>A	uc002und.2	-	4	768	c.543C>T	c.(541-543)AGC>AGT	p.S181S	TTN_uc010zfg.1_Silent_p.S181S|TTN_uc010zfh.1_Silent_p.S181S|TTN_uc010zfi.1_Silent_p.S181S|TTN_uc010zfj.1_Silent_p.S181S|TTN_uc002unb.2_Silent_p.S181S			Q8WZ42	TITIN_HUMAN	Homo sapiens cDNA FLJ32040 fis, clone NTONG2000858, highly similar to H.sapiens mRNA for titin protein.	181							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTCTTCCAACGCTATTGGTGG	0.468													10	165					0	0	0.003163	0	0	
TTN	7273	broad.mit.edu	37	2	179666955	179666955	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179666955C>T	uc002und.2	-	3	430	c.205G>A	c.(205-207)GCC>ACC	p.A69T	TTN_uc010zfg.1_Missense_Mutation_p.A69T|TTN_uc010zfh.1_Missense_Mutation_p.A69T|TTN_uc010zfi.1_Missense_Mutation_p.A69T|TTN_uc010zfj.1_Missense_Mutation_p.A69T|TTN_uc002unb.2_Missense_Mutation_p.A69T			Q8WZ42	TITIN_HUMAN	Homo sapiens cDNA FLJ32040 fis, clone NTONG2000858, highly similar to H.sapiens mRNA for titin protein.	69							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTAGTCACGGCGGGGATCGTC	0.547													33	57					0	0	0.003271	0	0	
CCDC141	285025	broad.mit.edu	37	2	179732869	179732869	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179732869C>T	uc002unf.1	-	6	790	c.733G>A	c.(733-735)GCC>ACC	p.A245T		NM_173648	NP_775919	Q6ZP82	CC141_HUMAN	coiled-coil domain containing 141	245							protein binding			ovary(7)|pancreas(2)|skin(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.0531)|all cancers(119;0.147)			ACATCATGGGCATCACCCAGT	0.493													14	49					0	0	0.004007	0	0	
SESTD1	91404	broad.mit.edu	37	2	179974726	179974726	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:179974726T>C	uc002uni.3	-	18	2141	c.1991A>G	c.(1990-1992)GAC>GGC	p.D664G	SESTD1_uc002unh.3_Missense_Mutation_p.D167G	NM_178123	NP_835224	Q86VW0	SESD1_HUMAN	SEC14 and spectrin domains 1	664					regulation of calcium ion transport via voltage-gated calcium channel activity		phosphatidic acid binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylinositol-4-phosphate binding|phosphatidylinositol-5-phosphate binding|protein binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0344)|Epithelial(96;0.0531)|all cancers(119;0.147)			AGAAGCCATGTCACTTGGACT	0.373													10	47					0	0	0.001368	0	0	
SESTD1	91404	broad.mit.edu	37	2	180047900	180047900	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:180047900C>T	uc002uni.3	-	3	221	c.71G>A	c.(70-72)CGG>CAG	p.R24Q		NM_178123	NP_835224	Q86VW0	SESD1_HUMAN	SEC14 and spectrin domains 1	24	CRAL-TRIO.				regulation of calcium ion transport via voltage-gated calcium channel activity		phosphatidic acid binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylinositol-4-phosphate binding|phosphatidylinositol-5-phosphate binding|protein binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0344)|Epithelial(96;0.0531)|all cancers(119;0.147)			GAGGCCACTCCGTCTGTCTTT	0.348													17	44					0	0	0.006122	0	0	
NEUROD1	4760	broad.mit.edu	37	2	182542954	182542954	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:182542954C>T	uc002uof.2	-	2	870	c.634G>A	c.(634-636)GCT>ACT	p.A212T	CERKL_uc002uod.1_Intron	NM_002500	NP_002491	Q13562	NDF1_HUMAN	neurogenic differentiation 1	212					amacrine cell differentiation|cerebellum development|dentate gyrus development|embryonic organ morphogenesis|enteroendocrine cell differentiation|glucose homeostasis|inner ear development|insulin secretion|negative regulation of apoptosis|nitric oxide mediated signal transduction|positive regulation of apoptosis|positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of cell cycle arrest|regulation of intestinal epithelial structure maintenance|response to glucose stimulus	cytoplasm|nucleus	chromatin binding|E-box binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.088)			GGGAAGGAAGCGCTGGCCGTC	0.622													11	27					0	0	0.004990	0	0	
SSFA2	6744	broad.mit.edu	37	2	182786932	182786932	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:182786932G>A	uc002uoi.2	+	16	3790	c.3468G>A	c.(3466-3468)ACG>ACA	p.T1156T	SSFA2_uc002uoh.2_Silent_p.T1156T|SSFA2_uc002uoj.2_Silent_p.T1134T|SSFA2_uc002uok.2_RNA|SSFA2_uc010zfo.1_Silent_p.T981T|SSFA2_uc002uol.2_Silent_p.T1003T|SSFA2_uc002uom.2_Silent_p.T620T	NM_001130445	NP_001123917	P28290	SSFA2_HUMAN	sperm specific antigen 2 isoform 1	1156						cytoplasm|plasma membrane	actin binding			breast(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0856)			TGGCTCTAACGCCAACAGCTC	0.502													11	172					0	0	0.002450	0	0	
FRZB	2487	broad.mit.edu	37	2	183730941	183730941	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:183730941G>A	uc002upa.1	-	1	558	c.340C>T	c.(340-342)CGG>TGG	p.R114W		NM_001463	NP_001454	Q92765	SFRP3_HUMAN	frizzled-related protein precursor	114	FZ.				brain development|cochlea morphogenesis|gonad development|mammary gland involution|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cartilage development|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of hepatocyte differentiation|positive regulation of apoptosis|positive regulation of fat cell differentiation|skeletal system development|vasculature development|Wnt receptor signaling pathway	cytoplasm|extracellular space|membrane	PDZ domain binding|Wnt receptor activity|Wnt-protein binding			ovary(2)|lung(1)|central_nervous_system(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.109)|Epithelial(96;0.231)			TGCCGGGCCCGCTCGCACACA	0.627													9	22					0	0	0.006214	0	0	
ZNF804A	91752	broad.mit.edu	37	2	185800759	185800759	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:185800759C>T	uc002uph.2	+	4	1230	c.636C>T	c.(634-636)ATC>ATT	p.I212I		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	212						intracellular	zinc ion binding	p.I212I(1)		ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						GACACAAAATCGGCTTTTCTT	0.438													6	77					0	0	0.001984	0	0	
CALCRL	10203	broad.mit.edu	37	2	188247920	188247920	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:188247920T>C	uc002upv.3	-	5	712	c.164A>G	c.(163-165)GAC>GGC	p.D55G	CALCRL_uc010frt.2_Missense_Mutation_p.D55G	NM_005795	NP_005786	Q16602	CALRL_HUMAN	calcitonin receptor-like precursor	55	Extracellular (Potential).					integral to plasma membrane				lung(3)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0554)|Epithelial(96;0.227)			TTGAATGGGGTCTTGCATAAT	0.343													5	80					0	0	0.000602	0	0	
SLC40A1	30061	broad.mit.edu	37	2	190445148	190445148	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:190445148G>A	uc002uqp.3	-	1	390	c.39C>T	c.(37-39)TGC>TGT	p.C13C	SLC40A1_uc002uqr.1_RNA|SLC40A1_uc002uqs.1_RNA|SLC40A1_uc002uqq.2_Silent_p.C13C|SLC40A1_uc010zfx.1_RNA	NM_014585	NP_055400	Q9NP59	S40A1_HUMAN	solute carrier family 40 (iron-regulated	13	Helical; (Potential).				anatomical structure morphogenesis|cellular iron ion homeostasis	cytoplasm|integral to plasma membrane	iron ion transmembrane transporter activity|protein binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.000917)|Epithelial(96;0.014)|all cancers(119;0.0491)			ACTCACCACAGCATCCTCTCT	0.587													14	46					0	0	0.008871	0	0	
ANKAR	150709	broad.mit.edu	37	2	190593148	190593148	+	Splice_Site	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:190593148T>A	uc002uqw.1	+	13	2818	c.2818_splice	c.e13+2	p.G940_splice	ANKAR_uc002uqu.2_Splice_Site|ANKAR_uc002uqx.1_Splice_Site|ANKAR_uc002uqy.1_Splice_Site_p.G107_splice	NM_144708	NP_653309	Q7Z5J8	ANKAR_HUMAN	ankyrin and armadillo repeat containing							integral to membrane	binding			ovary(2)|pancreas(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00156)|Epithelial(96;0.0256)|all cancers(119;0.0744)			AGTATGTTGGTAAGTTATTTT	0.169													4	35					0	0	0.009096	0	0	
PMS1	5378	broad.mit.edu	37	2	190660570	190660570	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:190660570G>A	uc002urh.3	+	3	737	c.208G>A	c.(208-210)GCA>ACA	p.A70T	PMS1_uc010zga.1_Missense_Mutation_p.A70T|PMS1_uc010zgb.1_Intron|PMS1_uc002urk.3_Missense_Mutation_p.A70T|PMS1_uc002uri.3_Missense_Mutation_p.A70T|PMS1_uc010zgc.1_5'UTR|PMS1_uc010zgd.1_Intron|PMS1_uc002urj.2_RNA|PMS1_uc010fry.1_Missense_Mutation_p.A70T|PMS1_uc010frz.2_Missense_Mutation_p.A70T|PMS1_uc010zfz.1_Missense_Mutation_p.A70T	NM_000534	NP_000525	P54277	PMS1_HUMAN	postmeiotic segregation 1 isoform a	70					mismatch repair|reciprocal meiotic recombination	MutLalpha complex	ATP binding|ATPase activity|mismatched DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0013)|Epithelial(96;0.0263)|all cancers(119;0.0751)			ACCTGTAATGGCAATGAAGTA	0.368			Mis|N			colorectal|endometrial|ovarian		Direct_reversal_of_damage|MMR					9	93					0	0	0.004482	0	0	
Unknown	0	broad.mit.edu	37	2	190788579	190788579	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:190788579G>A	uc002uro.2	+	1	661	c.518G>A	c.(517-519)GGA>GAA	p.G173E						SubName: Full=cDNA FLJ54127, highly similar to Heterogeneous nuclear ribonucleoproteins C;																		TCCAAGTCTGGAAAGTTGAAA	0.448													37	117					0	0	0.005524	0	0	
MFSD6	54842	broad.mit.edu	37	2	191301521	191301521	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:191301521A>G	uc002urz.2	+	3	1090	c.766A>G	c.(766-768)ACC>GCC	p.T256A		NM_017694	NP_060164	Q6ZSS7	MFSD6_HUMAN	major facilitator superfamily domain containing	256					transmembrane transport	integral to membrane				ovary(2)	2						AGGAAGCGTAACCAAGGAGAC	0.443													7	163					0	0	0.004482	0	0	
MFSD6	54842	broad.mit.edu	37	2	191301738	191301738	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:191301738G>A	uc002urz.2	+	3	1307	c.983G>A	c.(982-984)CGC>CAC	p.R328H		NM_017694	NP_060164	Q6ZSS7	MFSD6_HUMAN	major facilitator superfamily domain containing	328					transmembrane transport	integral to membrane				ovary(2)	2						GGGTTGCAGCGCATGTGGGGC	0.537													6	80					0	0	0.003080	0	0	
STAT1	6772	broad.mit.edu	37	2	191851675	191851675	+	Splice_Site	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:191851675T>G	uc002usj.2	-	14	1516	c.1128_splice	c.e14-1	p.G376_splice	STAT1_uc010fse.1_Splice_Site_p.G376_splice|STAT1_uc002usk.2_Splice_Site_p.G376_splice|STAT1_uc002usl.2_Splice_Site_p.G378_splice|STAT1_uc010fsf.1_Splice_Site_p.G188_splice	NM_007315	NP_009330	P42224	STAT1_HUMAN	signal transducer and activator of transcription						activation of caspase activity|I-kappaB kinase/NF-kappaB cascade|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway|tyrosine phosphorylation of STAT protein	cytosol|nucleolus|nucleoplasm	calcium ion binding|protein binding|RNA polymerase II core promoter sequence-specific DNA binding|RNA polymerase II core promoter sequence-specific DNA binding transcription factor activity|signal transducer activity			lung(3)|breast(3)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.00434)|Epithelial(96;0.0555)|all cancers(119;0.141)		Fludarabine(DB01073)	TTCCTAAATCTATACAATATA	0.398													8	187					0	0	0.003080	0	0	
DNAH7	56171	broad.mit.edu	37	2	196673563	196673563	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:196673563C>T	uc002utj.3	-	53	10027	c.9926G>A	c.(9925-9927)GGC>GAC	p.G3309D		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	3309					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						CAGTCCAATGCCACCAGTTAG	0.408													5	53					0	0	0.001168	0	0	
DNAH7	56171	broad.mit.edu	37	2	196718175	196718175	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:196718175G>A	uc002utj.3	-	46	8774	c.8673C>T	c.(8671-8673)AGC>AGT	p.S2891S		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	2891					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						GAGCTGTGTGGCTCCATCGAG	0.483													4	64					0	0	0.009096	0	0	
DNAH7	56171	broad.mit.edu	37	2	196771409	196771409	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:196771409G>A	uc002utj.3	-	27	4410	c.4309C>T	c.(4309-4311)CGA>TGA	p.R1437*		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	1437	AAA 1 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						AGTTCTGATCGCCCAGCATAC	0.338													14	77					0	0	0.004007	0	0	
CCDC150	284992	broad.mit.edu	37	2	197521851	197521851	+	Silent	SNP	G	A	A	rs146046280	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:197521851G>A	uc002utp.1	+	4	702	c.567G>A	c.(565-567)TCG>TCA	p.S189S	CCDC150_uc002uto.1_Silent_p.S189S|CCDC150_uc010zgq.1_RNA|CCDC150_uc010zgr.1_Intron|CCDC150_uc010zgs.1_Intron	NM_001080539	NP_001074008	Q8NCX0	CC150_HUMAN	coiled-coil domain containing 150	189	Potential.										0						AGATTGCCTCGCAGACAAAGG	0.428													9	73					0	0	0.006214	0	0	
PGAP1	80055	broad.mit.edu	37	2	197763060	197763060	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:197763060C>A	uc002utw.2	-	6	955	c.841G>T	c.(841-843)GAC>TAC	p.D281Y	PGAP1_uc002utx.2_Missense_Mutation_p.D107Y|PGAP1_uc002uty.1_Missense_Mutation_p.D281Y|PGAP1_uc010zgv.1_RNA|PGAP1_uc010fsj.2_Missense_Mutation_p.D107Y	NM_024989	NP_079265	Q75T13	PGAP1_HUMAN	GPI deacylase	281	Lumenal (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation|intracellular protein transport|myo-inositol transport	integral to membrane|intrinsic to endoplasmic reticulum membrane	nuclease activity|phosphoric ester hydrolase activity			ovary(3)|central_nervous_system(1)	4						GAGAGGTGGTCTGTTGAGACC	0.353													21	50					1.55469e-16	1.69565e-16	0.003330	1	0	
ANKRD44	91526	broad.mit.edu	37	2	197987425	197987425	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:197987425G>T	uc002uuc.2	-	7	809	c.642C>A	c.(640-642)GCC>GCA	p.A214A	ANKRD44_uc002utz.3_5'UTR|ANKRD44_uc002uua.1_Silent_p.A189A|ANKRD44_uc002uub.2_Silent_p.A214A|ANKRD44_uc010zgw.1_Silent_p.A142A	NM_153697	NP_710181	Q8N8A2	ANR44_HUMAN	ankyrin repeat domain 44	214	ANK 7.						protein binding			ovary(4)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(117;0.246)			GTCCATTGGAGGCTGCAGCAT	0.458													7	48					5.18039e-06	5.47617e-06	0.003080	1	0	
PLCL1	5334	broad.mit.edu	37	2	198950276	198950276	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:198950276G>A	uc010fsp.2	+	2	2326	c.2035G>A	c.(2035-2037)GAC>AAC	p.D679N	PLCL1_uc002uuv.3_Missense_Mutation_p.D600N	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	679	PI-PLC Y-box.				intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	TCCAATGATGGACCTTCACAC	0.443													23	64					0	0	0.002299	0	0	
SATB2	23314	broad.mit.edu	37	2	200298074	200298074	+	Silent	SNP	C	T	T	rs140116634		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:200298074C>T	uc002uuy.1	-	3	1150	c.333G>A	c.(331-333)GCG>GCA	p.A111A	SATB2_uc010fsq.1_Silent_p.A111A|SATB2_uc002uuz.1_Silent_p.A111A|SATB2_uc002uva.1_Silent_p.A111A	NM_015265	NP_056080	Q9UPW6	SATB2_HUMAN	SATB homeobox 2	111						cytoplasm|nuclear matrix	sequence-specific DNA binding transcription factor activity			ovary(1)	1						GGGCCTGGGCCGCAGAGCTGT	0.507													19	54					0	0	0.006122	0	0	
KCTD18	130535	broad.mit.edu	37	2	201369584	201369584	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:201369584C>T	uc002uvs.2	-	3	776	c.259G>A	c.(259-261)GCC>ACC	p.A87T	KCTD18_uc002uvt.2_Missense_Mutation_p.A87T|KCTD18_uc002uvu.1_Missense_Mutation_p.A87T	NM_152387	NP_689600	Q6PI47	KCD18_HUMAN	potassium channel tetramerization domain	87						voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1						TCCTGTAGGGCGATGCGGGTT	0.433													6	66					0	0	0.001168	0	0	
SGOL2	151246	broad.mit.edu	37	2	201437568	201437568	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:201437568A>G	uc002uvw.2	+	7	2612	c.2499A>G	c.(2497-2499)GTA>GTG	p.V833V	SGOL2_uc010zhd.1_Silent_p.V833V|SGOL2_uc010zhe.1_Silent_p.V833V	NM_152524	NP_689737	Q562F6	SGOL2_HUMAN	shugoshin-like 2 isoform 1	833					cell division|mitotic prometaphase	condensed chromosome kinetochore|cytosol|mitotic cohesin complex	protein binding			ovary(2)|skin(2)	4						ACAAAGGTGTACATGACCTAG	0.308													12	140					0	0	0.001368	0	0	
CLK1	1195	broad.mit.edu	37	2	201721521	201721521	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:201721521C>T	uc002uwe.2	-	9	1122	c.941G>A	c.(940-942)CGC>CAC	p.R314H	CLK1_uc002uwd.2_Missense_Mutation_p.R137H|CLK1_uc010zhi.1_Missense_Mutation_p.R356H|CLK1_uc002uwf.2_Missense_Mutation_p.R88H|CLK1_uc002uwg.2_Missense_Mutation_p.R163H|CLK1_uc010fsv.2_RNA	NM_004071	NP_004062	P49759	CLK1_HUMAN	CDC-like kinase 1 isoform 1	314	Protein kinase.				cell proliferation	nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein serine/threonine kinase activity			pancreas(2)	2						TATTAAGGTGCGTTCATCACG	0.323													30	50					0	0	0.004289	0	0	
FAM117B	150864	broad.mit.edu	37	2	203622048	203622048	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:203622048A>G	uc010zhx.1	+	6	1227	c.1217A>G	c.(1216-1218)AAC>AGC	p.N406S		NM_173511	NP_775782	Q6P1L5	F117B_HUMAN	amyotrophic lateral sclerosis 2 (juvenile)	406										ovary(1)	1						GGAAGCAACAACAGCAGCCGT	0.577													4	35					0	0	0.000602	0	0	
RAPH1	65059	broad.mit.edu	37	2	204354353	204354353	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:204354353C>T	uc002vad.2	-	4	911	c.686G>A	c.(685-687)CGC>CAC	p.R229H	RAPH1_uc002vae.2_Missense_Mutation_p.R229H|RAPH1_uc002vaf.2_Missense_Mutation_p.R229H	NM_213589	NP_998754	Q70E73	RAPH1_HUMAN	Ras association and pleckstrin homology domains	229					cell-matrix adhesion|signal transduction	cytoplasm|cytoskeleton|filopodium|lamellipodium|nucleus|plasma membrane				ovary(3)|breast(3)|central_nervous_system(2)|lung(1)|skin(1)	10						CTCTTGAGGGCGTGTTACTTT	0.403													22	89					0	0	0.004656	0	0	
PARD3B	117583	broad.mit.edu	37	2	205986630	205986630	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:205986630C>A	uc002var.1	+	8	1329	c.1122C>A	c.(1120-1122)GGC>GGA	p.G374G	PARD3B_uc010fub.1_Silent_p.G374G|PARD3B_uc002vao.1_Silent_p.G374G|PARD3B_uc002vap.1_Silent_p.G374G|PARD3B_uc002vaq.1_Silent_p.G374G	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	374					cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		TGGGATTTGGCAGCAATAAAA	0.388													15	54					0.000422831	0.000441874	0.004007	1	0	
NRP2	8828	broad.mit.edu	37	2	206608199	206608199	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:206608199C>T	uc002vaw.2	+	9	2355	c.1564C>T	c.(1564-1566)CGC>TGC	p.R522C	NRP2_uc002vat.2_Missense_Mutation_p.R522C|NRP2_uc002vau.2_Missense_Mutation_p.R522C|NRP2_uc002vav.2_Missense_Mutation_p.R522C|NRP2_uc002vax.2_Missense_Mutation_p.R522C|NRP2_uc002vay.2_Missense_Mutation_p.R522C|NRP2_uc010fud.2_Missense_Mutation_p.R522C	NM_201266	NP_957718	O60462	NRP2_HUMAN	neuropilin 2 isoform 1 precursor	522	Extracellular (Potential).|F5/8 type C 2.				angiogenesis|axon guidance|cell adhesion	integral to membrane|membrane fraction|plasma membrane	heparin binding|metal ion binding|semaphorin receptor activity|vascular endothelial growth factor receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4						AGCATTTGTGCGCAAGTTCAA	0.542													13	45					0	0	0.003163	0	0	
EEF1B2	1933	broad.mit.edu	37	2	207026140	207026140	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:207026140G>A	uc002vbf.1	+	4	432	c.274G>A	c.(274-276)GCT>ACT	p.A92T	NDUFS1_uc010ziq.1_5'Flank|NDUFS1_uc002vbe.2_5'Flank|NDUFS1_uc010zir.1_5'Flank|NDUFS1_uc010zis.1_5'Flank|NDUFS1_uc010zit.1_5'Flank|NDUFS1_uc010ziu.1_5'Flank|EEF1B2_uc002vbg.1_Missense_Mutation_p.A92T|EEF1B2_uc002vbh.1_Missense_Mutation_p.A92T|SNORD51_uc002vbi.1_5'Flank|SNORA41_uc002vbj.2_5'Flank	NM_001037663	NP_001032752	P24534	EF1B_HUMAN	eukaryotic translation elongation factor 1 beta	92						cytosol|eukaryotic translation elongation factor 1 complex	protein binding|translation elongation factor activity				0						AGGAAGTGGAGCTACAGATAG	0.378													37	77					0	0	0.006230	0	0	
ZDBF2	57683	broad.mit.edu	37	2	207170556	207170556	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:207170556G>A	uc002vbp.2	+	5	1554	c.1304G>A	c.(1303-1305)CGT>CAT	p.R435H		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	435							nucleic acid binding|zinc ion binding			ovary(3)	3						AAGGAAGTACGTACTGATGTA	0.343													18	79					0	0	0.008871	0	0	
ZDBF2	57683	broad.mit.edu	37	2	207175899	207175899	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:207175899G>A	uc002vbp.2	+	5	6897	c.6647G>A	c.(6646-6648)CGG>CAG	p.R2216Q		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	2216							nucleic acid binding|zinc ion binding			ovary(3)	3						ATTTGGATTCGGACCAAACCA	0.358													6	56					0	0	0.001168	0	0	
ADAM23	8745	broad.mit.edu	37	2	207406814	207406814	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:207406814C>T	uc002vbq.2	+	5	835	c.612C>T	c.(610-612)GGC>GGT	p.G204G	ADAM23_uc010ziv.1_RNA	NM_003812	NP_003803	O75077	ADA23_HUMAN	ADAM metallopeptidase domain 23 preproprotein	204					cell adhesion|central nervous system development|proteolysis	extracellular region|integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			skin(2)|ovary(1)	3				LUSC - Lung squamous cell carcinoma(261;0.0961)|Lung(261;0.182)|Epithelial(149;0.205)		GCATCAGAGGCGTCAAAGACT	0.423													13	94					0	0	0.001855	0	0	
MDH1B	130752	broad.mit.edu	37	2	207619807	207619807	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:207619807A>T	uc002vbs.2	-	5	891	c.836T>A	c.(835-837)ATT>AAT	p.I279N	MDH1B_uc010ziw.1_Intron|MDH1B_uc010fui.2_Missense_Mutation_p.I279N|MDH1B_uc010fuj.2_Missense_Mutation_p.I181N|MDH1B_uc002vbt.2_Intron	NM_001039845	NP_001034934	Q5I0G3	MDH1B_HUMAN	malate dehydrogenase 1B, NAD (soluble)	279					carbohydrate metabolic process|malate metabolic process|tricarboxylic acid cycle		binding|malate dehydrogenase activity			ovary(3)|kidney(1)	4				LUSC - Lung squamous cell carcinoma(261;0.0763)|Epithelial(149;0.131)|Lung(261;0.145)		CACAGCAATAATGTTGTGTGC	0.463													5	89					0	0	0.001168	0	0	
CRYGA	1418	broad.mit.edu	37	2	209025726	209025726	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:209025726G>A	uc002vcq.3	-	3	344	c.327C>T	c.(325-327)TGC>TGT	p.C109C		NM_014617	NP_055432	P11844	CRGA_HUMAN	crystallin, gamma A	109	Beta/gamma crystallin 'Greek key' 3.				visual perception		structural constituent of eye lens				0				Epithelial(149;0.067)|LUSC - Lung squamous cell carcinoma(261;0.0708)|Lung(261;0.135)		GAACACAGGCGCAGTCATCAG	0.532													19	47					0	0	0.007413	0	0	
UNC80	285175	broad.mit.edu	37	2	210782542	210782542	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:210782542G>A	uc010zjc.1	+	31	4953	c.4873G>A	c.(4873-4875)GTG>ATG	p.V1625M	UNC80_uc002vdk.2_Missense_Mutation_p.V786M	NM_032504	NP_115893	Q8N2C7	UNC80_HUMAN	chromosome 2 open reading frame 21 isoform 1	1625						integral to membrane					0						GCCTGAGGCCGTGTCCGACAT	0.517													5	6					0	0	0.001168	0	0	
LANCL1	10314	broad.mit.edu	37	2	211302452	211302452	+	Missense_Mutation	SNP	C	T	T	rs149749262	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:211302452C>T	uc010zjh.1	-	7	910	c.835G>A	c.(835-837)GCC>ACC	p.A279T	LANCL1_uc002ved.2_Missense_Mutation_p.A279T|LANCL1_uc010fuq.2_Missense_Mutation_p.A279T	NM_001136574	NP_001130046	O43813	LANC1_HUMAN	lanthionine synthetase C-like protein 1	279						cytoplasm|integral to plasma membrane|microtubule cytoskeleton|nucleus	catalytic activity|G-protein coupled receptor activity|glutathione binding|low-density lipoprotein particle receptor binding|SH3 domain binding|zinc ion binding				0				Epithelial(149;0.00562)|Lung(261;0.0468)|LUSC - Lung squamous cell carcinoma(261;0.0495)|all cancers(144;0.0569)		ACCCCAGGGGCGCCATGGCAC	0.378													22	41					0	0	0.005443	0	0	
CPS1	1373	broad.mit.edu	37	2	211507258	211507258	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:211507258C>T	uc002vee.3	+	25	3142	c.3010C>T	c.(3010-3012)CGT>TGT	p.R1004C	CPS1_uc010fur.2_Missense_Mutation_p.R1010C|CPS1_uc010fus.2_Missense_Mutation_p.R553C	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	1004					carbamoyl phosphate biosynthetic process|citrulline biosynthetic process|glutamine metabolic process|glycogen catabolic process|nitric oxide metabolic process|positive regulation of vasodilation|response to lipopolysaccharide|triglyceride catabolic process|urea cycle	mitochondrial nucleoid	ATP binding|carbamoyl-phosphate synthase (ammonia) activity			ovary(8)|central_nervous_system(3)|breast(1)|skin(1)	13				Epithelial(149;0.00697)|Lung(261;0.0521)|LUSC - Lung squamous cell carcinoma(261;0.0544)|all cancers(144;0.0843)		CCGCACACTGCGTCAACTTGG	0.463													6	79					0	0	0.001984	0	0	
FN1	2335	broad.mit.edu	37	2	216269111	216269111	+	Splice_Site	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:216269111C>T	uc002vfa.2	-	20	3519	c.3253_splice	c.e20+1	p.L1085_splice	FN1_uc002vfb.2_Splice_Site_p.L1085_splice|FN1_uc002vfc.2_Splice_Site_p.L1085_splice|FN1_uc002vfd.2_Splice_Site_p.L1085_splice|FN1_uc002vfe.2_Splice_Site_p.L1085_splice|FN1_uc002vff.2_Splice_Site_p.L1085_splice|FN1_uc002vfg.2_Splice_Site_p.L1085_splice|FN1_uc002vfh.2_Splice_Site_p.L1085_splice|FN1_uc002vfi.2_Splice_Site_p.L1085_splice|FN1_uc002vfj.2_Splice_Site_p.L1085_splice	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein						acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TTTCAGCTTACGTGTGGTAAA	0.358													19	72					0	0	0.001882	0	0	
FN1	2335	broad.mit.edu	37	2	216298122	216298122	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:216298122G>A	uc002vfa.2	-	3	606	c.340C>T	c.(340-342)CGT>TGT	p.R114C	FN1_uc002vfb.2_Missense_Mutation_p.R114C|FN1_uc002vfc.2_Missense_Mutation_p.R114C|FN1_uc002vfd.2_Missense_Mutation_p.R114C|FN1_uc002vfe.2_Missense_Mutation_p.R114C|FN1_uc002vff.2_Missense_Mutation_p.R114C|FN1_uc002vfg.2_Missense_Mutation_p.R114C|FN1_uc002vfh.2_Missense_Mutation_p.R114C|FN1_uc002vfi.2_Missense_Mutation_p.R114C|FN1_uc002vfj.2_Missense_Mutation_p.R114C|FN1_uc002vfl.2_Missense_Mutation_p.R114C	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	114	Fibronectin type-I 2.|Fibrin- and heparin-binding 1.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TCTTTAGGACGCTCATAAGTG	0.488													20	63					0	0	0.008871	0	0	
TNS1	7145	broad.mit.edu	37	2	218682847	218682847	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:218682847C>T	uc002vgt.2	-	24	4294	c.3896G>A	c.(3895-3897)AGC>AAC	p.S1299N	TNS1_uc002vgr.2_Missense_Mutation_p.S1286N|TNS1_uc002vgs.2_Missense_Mutation_p.S1278N|TNS1_uc010zjv.1_Missense_Mutation_p.S1278N	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	1299						cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		ACGGCCCAGGCTGGGGCTTCC	0.667													3	11					0	0	0.000602	0	0	
TNS1	7145	broad.mit.edu	37	2	218751283	218751283	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:218751283C>T	uc002vgt.2	-	11	976	c.578G>A	c.(577-579)GGC>GAC	p.G193D	TNS1_uc002vgr.2_Missense_Mutation_p.G193D|TNS1_uc002vgs.2_Missense_Mutation_p.G193D|TNS1_uc010zjv.1_Missense_Mutation_p.G193D|TNS1_uc010fvj.1_Missense_Mutation_p.G261D|TNS1_uc010fvk.1_Missense_Mutation_p.G318D|TNS1_uc002vgu.3_Missense_Mutation_p.G224D|TNS1_uc010fvi.1_5'Flank	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	193	C2 tensin-type.					cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		GTTGGGGATGCCGTGCATGAT	0.522											OREG0015188	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	9					0	0	0.009096	0	0	
ZNF142	7701	broad.mit.edu	37	2	219503385	219503385	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:219503385G>A	uc002vin.2	-	10	5177	c.4741C>T	c.(4741-4743)CGC>TGC	p.R1581C	ZNF142_uc002vil.2_Missense_Mutation_p.R1542C|ZNF142_uc010fvt.2_Missense_Mutation_p.R1418C|ZNF142_uc002vim.2_Missense_Mutation_p.R1418C	NM_001105537	NP_001099007	P52746	ZN142_HUMAN	zinc finger protein 142	1581	C2H2-type 29.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;5.21e-07)|all cancers(144;0.000106)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)		AGGTGGGTGCGCAGCAGGAAG	0.617													6	28					0	0	0.001168	0	0	
RNF25	64320	broad.mit.edu	37	2	219528910	219528910	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:219528910C>T	uc002vit.2	-	10	1238	c.1150G>A	c.(1150-1152)GAC>AAC	p.D384N	RNF25_uc010fvw.2_Missense_Mutation_p.D272N	NM_022453	NP_071898	Q96BH1	RNF25_HUMAN	ring finger protein 25	384					positive regulation of NF-kappaB transcription factor activity	cytosol|nucleus	NF-kappaB binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2		Renal(207;0.0474)		Epithelial(149;6.99e-07)|all cancers(144;0.000129)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GGCTTTAGGTCCATGGGCTCC	0.652													24	78					0	0	0.004656	0	0	
CCDC108	255101	broad.mit.edu	37	2	219892449	219892449	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:219892449C>T	uc002vjl.1	-	13	2218	c.2134G>A	c.(2134-2136)GCC>ACC	p.A712T	CCDC108_uc010fwa.1_Missense_Mutation_p.A155T|CCDC108_uc010zkp.1_Missense_Mutation_p.A701T|CCDC108_uc010zkq.1_Missense_Mutation_p.A647T	NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	712						integral to membrane	structural molecule activity			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Renal(207;0.0915)		Epithelial(149;1.12e-06)|all cancers(144;0.000196)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AGGCGCATGGCCATGGACTTG	0.602													23	40					0	0	0.002299	0	0	
CCDC108	255101	broad.mit.edu	37	2	219895460	219895460	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:219895460G>A	uc002vjl.1	-	9	1196	c.1112C>T	c.(1111-1113)GCT>GTT	p.A371V	CCDC108_uc010fwa.1_5'Flank|CCDC108_uc010zkp.1_Missense_Mutation_p.A360V|CCDC108_uc010zkq.1_Missense_Mutation_p.A306V	NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	371						integral to membrane	structural molecule activity			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Renal(207;0.0915)		Epithelial(149;1.12e-06)|all cancers(144;0.000196)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GCAGCCCACAGCAACAGAGCC	0.627													6	23					0	0	0.008291	0	0	
IHH	3549	broad.mit.edu	37	2	219920499	219920499	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:219920499G>A	uc002vjo.1	-	3	666	c.666C>T	c.(664-666)GCC>GCT	p.A222A		NM_002181	NP_002172	Q14623	IHH_HUMAN	Indian hedgehog homolog precursor	222					cell-cell signaling|intein-mediated protein splicing|proteolysis	extracellular space|plasma membrane	cholesterol binding|patched binding|peptidase activity			breast(1)	1		Renal(207;0.0915)		Epithelial(149;1.13e-06)|all cancers(144;0.000188)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CCGGCCTCACGGCTGACAAGG	0.672													4	12					0	0	0.009096	0	0	
DNAJB2	3300	broad.mit.edu	37	2	220145307	220145307	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:220145307C>T	uc002vkx.1	+	3	310	c.73C>T	c.(73-75)CGC>TGC	p.R25C	DNAJB2_uc010zla.1_Missense_Mutation_p.R25C|DNAJB2_uc002vkw.1_Missense_Mutation_p.R25C|DNAJB2_uc002vky.2_5'Flank|DNAJB2_uc010zlb.1_5'Flank	NM_006736	NP_006727	P25686	DNJB2_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 2	25	J.				ER-associated protein catabolic process|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of inclusion body assembly|negative regulation of protein deubiquitination|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein folding|response to unfolded protein	inclusion body	heat shock protein binding|Hsp70 protein binding|polyubiquitin binding|proteasome binding|protein binding|unfolded protein binding				0		Renal(207;0.0474)		Epithelial(149;1.97e-06)|all cancers(144;0.00028)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CAGGTATCGGCGCAAGGCTCT	0.517													6	24					0	0	0.001984	0	0	
OBSL1	23363	broad.mit.edu	37	2	220432875	220432875	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:220432875C>T	uc010fwk.2	-	2	1241	c.1184G>A	c.(1183-1185)CGG>CAG	p.R395Q	OBSL1_uc010fwl.1_5'Flank|OBSL1_uc002vmi.2_Missense_Mutation_p.R395Q|OBSL1_uc002vmj.2_5'UTR	NM_015311	NP_056126	O75147	OBSL1_HUMAN	obscurin-like 1	395	Ig-like 4.				cardiac myofibril assembly	intercalated disc|M band|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity				0		Renal(207;0.0376)		Epithelial(149;2.02e-07)|all cancers(144;1.68e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00834)		GATGAGGCGCCGGACAGTGCC	0.622											OREG0003988	type=REGULATORY REGION|Gene=OBSL1|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	8	13					0	0	0.006214	0	0	
EPHA4	2043	broad.mit.edu	37	2	222301233	222301233	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:222301233A>G	uc002vmq.2	-	13	2274	c.2232T>C	c.(2230-2232)CAT>CAC	p.H744H	EPHA4_uc002vmr.2_Silent_p.H744H|EPHA4_uc010zlm.1_Silent_p.H685H|EPHA4_uc010zln.1_Silent_p.H744H	NM_004438	NP_004429	P54764	EPHA4_HUMAN	ephrin receptor EphA4 precursor	744	Protein kinase.|Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(6)|large_intestine(2)|central_nervous_system(2)|urinary_tract(1)|skin(1)	12		Renal(207;0.0183)		Epithelial(121;5.38e-09)|all cancers(144;2.47e-06)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(261;0.0154)		CCAGATCACGATGCACATAGC	0.488													10	108					0	0	0.000978	0	0	
ACSL3	2181	broad.mit.edu	37	2	223795440	223795440	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:223795440G>C	uc002vni.2	+	14	2093	c.1642G>C	c.(1642-1644)GCT>CCT	p.A548P	ACSL3_uc002vnj.2_Missense_Mutation_p.A548P	NM_004457	NP_004448	O95573	ACSL3_HUMAN	acyl-CoA synthetase long-chain family member 3	548	Cytoplasmic (Potential).				long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane	ATP binding|fatty-acyl-CoA synthase activity|long-chain fatty acid-CoA ligase activity|protein binding			ovary(2)	2		Renal(207;0.0183)		Epithelial(121;1.28e-10)|all cancers(144;8.06e-08)|Lung(261;0.00834)|LUSC - Lung squamous cell carcinoma(224;0.00864)	Icosapent(DB00159)	AAAAACAAAAGCTGATTTCTT	0.403			T	ETV1	prostate								4	78					0	0	0.009096	0	0	
SCG2	7857	broad.mit.edu	37	2	224463687	224463687	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:224463687A>G	uc002vnm.2	-	2	447	c.314T>C	c.(313-315)CTG>CCG	p.L105P		NM_003469	NP_003460	P13521	SCG2_HUMAN	secretogranin II precursor	105					angiogenesis|endothelial cell migration|eosinophil chemotaxis|induction of positive chemotaxis|inflammatory response|MAPKKK cascade|negative regulation of apoptosis|negative regulation of endothelial cell proliferation|positive regulation of endothelial cell proliferation|protein secretion	extracellular space|stored secretory granule	chemoattractant activity|cytokine activity			ovary(1)	1		Renal(207;0.0112)|Lung NSC(271;0.0185)|all_lung(227;0.0271)		Epithelial(121;8.16e-11)|all cancers(144;4.66e-08)|Lung(261;0.00714)|LUSC - Lung squamous cell carcinoma(224;0.008)		TTCTTCACTCAGTGAATCCCT	0.453													41	96					0	0	0.009718	0	0	
WDFY1	57590	broad.mit.edu	37	2	224758990	224758990	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:224758990G>A	uc002vnq.2	-	8	843	c.792C>T	c.(790-792)GGC>GGT	p.G264G		NM_020830	NP_065881	Q8IWB7	WDFY1_HUMAN	WD repeat and FYVE domain containing 1	264	WD 6.					cytosol|early endosome|nucleus	1-phosphatidylinositol binding|zinc ion binding			lung(1)	1		all_lung(227;0.00682)|Lung NSC(271;0.00859)|Renal(207;0.0112)|all_hematologic(139;0.189)		Epithelial(121;5.34e-10)|all cancers(144;1.67e-07)|Lung(261;0.00807)|LUSC - Lung squamous cell carcinoma(224;0.00843)		CTGCAATTCCGCCGTCCGAGG	0.557													12	30					0	0	0.004007	0	0	
KIAA1486	57624	broad.mit.edu	37	2	226447052	226447052	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:226447052G>A	uc002voe.2	+	4	1094	c.919G>A	c.(919-921)GCC>ACC	p.A307T	KIAA1486_uc010fxa.1_Intron|KIAA1486_uc002vof.1_Missense_Mutation_p.A77T	NM_020864	NP_065915	Q9P242	K1486_HUMAN	hypothetical protein LOC57624	307										ovary(2)|central_nervous_system(1)	3		Renal(207;0.0112)|all_lung(227;0.0477)|Lung NSC(271;0.0644)|all_hematologic(139;0.101)|Esophageal squamous(248;0.129)		Epithelial(121;6.73e-10)|all cancers(144;4.32e-07)|Lung(261;0.0161)|LUSC - Lung squamous cell carcinoma(224;0.0223)		CTTGGACTTCGCCAAGGCCTC	0.592													14	29					0	0	0.002450	0	0	
IRS1	3667	broad.mit.edu	37	2	227660941	227660941	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:227660941C>T	uc002voh.3	-	1	2566	c.2514G>A	c.(2512-2514)CAG>CAA	p.Q838Q		NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1	838					fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(5)|central_nervous_system(4)|ovary(2)|pancreas(1)	12		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)		GCAGATGGGGCTGCAGAACCT	0.637													9	23					0	0	0.004482	0	0	
IRS1	3667	broad.mit.edu	37	2	227662528	227662528	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:227662528G>A	uc002voh.3	-	1	979	c.927C>T	c.(925-927)ACC>ACT	p.T309T		NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1	309	Ser-rich.				fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(5)|central_nervous_system(4)|ovary(2)|pancreas(1)	12		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)		GGGAGGTGGCGGTGATGCTCT	0.701											OREG0015248	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	25					0	0	0.000978	0	0	
COL4A4	1286	broad.mit.edu	37	2	227872065	227872065	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:227872065G>A	uc010zlt.1	-	47	5703	c.5049C>T	c.(5047-5049)TGC>TGT	p.C1683C		NM_000092	NP_000083	P53420	CO4A4_HUMAN	alpha 4 type IV collagen precursor	1683	Collagen IV NC1.				axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			ovary(5)|central_nervous_system(3)|pancreas(1)|breast(1)|skin(1)	11		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)		CGCAGACCTGGCACCGGCTGA	0.507													19	438					0	0	0.003330	0	0	
SLC19A3	80704	broad.mit.edu	37	2	228564079	228564079	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:228564079C>T	uc002vpi.2	-	3	441	c.352G>A	c.(352-354)GCC>ACC	p.A118T	SLC19A3_uc002vpj.2_RNA|SLC19A3_uc010zlv.1_Missense_Mutation_p.A114T	NM_025243	NP_079519	Q9BZV2	S19A3_HUMAN	solute carrier family 19, member 3	118	Helical; (Potential).				thiamine-containing compound metabolic process	integral to membrane|plasma membrane	folic acid binding|reduced folate carrier activity|thiamine uptake transmembrane transporter activity			ovary(2)	2		Renal(207;0.0112)|all_lung(227;0.0335)|Lung NSC(271;0.142)|all_hematologic(139;0.21)|Esophageal squamous(248;0.236)		Epithelial(121;1.58e-10)|all cancers(144;8.55e-08)|Lung(261;0.00948)|LUSC - Lung squamous cell carcinoma(224;0.0125)	L-Cysteine(DB00151)	ACCTCGGCGGCGGTGACCATC	0.562													17	58					0	0	0.006122	0	0	
SPHKAP	80309	broad.mit.edu	37	2	228882781	228882781	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:228882781G>A	uc002vpq.2	-	7	2836	c.2789C>T	c.(2788-2790)GCG>GTG	p.A930V	SPHKAP_uc002vpp.2_Missense_Mutation_p.A930V|SPHKAP_uc010zlx.1_Missense_Mutation_p.A930V	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	930	PKA-RII subunit binding domain (By similarity).					cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		TAATTCTTCCGCAAAGTCTGT	0.473													13	147					0	0	0.003163	0	0	
SPHKAP	80309	broad.mit.edu	37	2	228883827	228883827	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:228883827G>A	uc002vpq.2	-	7	1790	c.1743C>T	c.(1741-1743)TGC>TGT	p.C581C	SPHKAP_uc002vpp.2_Silent_p.C581C|SPHKAP_uc010zlx.1_Silent_p.C581C	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	581						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		GAGCCACTGAGCATGTCACCT	0.557													12	30					0	0	0.001368	0	0	
DNER	92737	broad.mit.edu	37	2	230223321	230223321	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:230223321C>T	uc002vpv.2	-	13	2296	c.2149G>A	c.(2149-2151)GCC>ACC	p.A717T		NM_139072	NP_620711	Q8NFT8	DNER_HUMAN	delta-notch-like EGF repeat-containing	717	Cytoplasmic (Potential).				central nervous system development|endocytosis|neuron migration|Notch signaling pathway|synapse assembly	dendrite|early endosome|integral to membrane|plasma membrane	calcium ion binding|clathrin binding|transmembrane receptor activity			lung(5)|ovary(2)|skin(1)	8		all_lung(227;0.00413)|Renal(207;0.0113)|Lung NSC(271;0.0211)|all_hematologic(139;0.105)|Acute lymphoblastic leukemia(138;0.175)		Epithelial(121;1.4e-11)|all cancers(144;7.7e-09)|LUSC - Lung squamous cell carcinoma(224;0.034)|Lung(119;0.0375)		TCTTCATAGGCGATGGGGCTC	0.358													5	80					0	0	0.001168	0	0	
TRIP12	9320	broad.mit.edu	37	2	230643195	230643195	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:230643195C>T	uc002vpw.1	-	35	5202	c.5093G>A	c.(5092-5094)CGC>CAC	p.R1698H	TRIP12_uc002vpx.1_Missense_Mutation_p.R1746H|TRIP12_uc002vpy.1_Missense_Mutation_p.R1428H	NM_004238	NP_004229	Q14669	TRIPC_HUMAN	thyroid hormone receptor interactor 12	1698					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	proteasome complex	thyroid hormone receptor binding|ubiquitin-protein ligase activity			ovary(4)|lung(2)|breast(1)|central_nervous_system(1)|skin(1)	9		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.126)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;4.76e-13)|all cancers(144;4.34e-10)|LUSC - Lung squamous cell carcinoma(224;0.00864)|Lung(119;0.0116)		TCCTAAGAAGCGAAACTTCAT	0.423													34	123					0	0	0.002836	0	0	
TRIP12	9320	broad.mit.edu	37	2	230672494	230672494	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:230672494G>A	uc002vpw.1	-	16	2391	c.2282C>T	c.(2281-2283)GCG>GTG	p.A761V	TRIP12_uc002vpx.1_Missense_Mutation_p.A809V|TRIP12_uc002vpy.1_Missense_Mutation_p.A464V|TRIP12_uc010zlz.1_Intron|TRIP12_uc010fxh.1_Missense_Mutation_p.A767V	NM_004238	NP_004229	Q14669	TRIPC_HUMAN	thyroid hormone receptor interactor 12	761	WWE.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	proteasome complex	thyroid hormone receptor binding|ubiquitin-protein ligase activity			ovary(4)|lung(2)|breast(1)|central_nervous_system(1)|skin(1)	9		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.126)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;4.76e-13)|all cancers(144;4.34e-10)|LUSC - Lung squamous cell carcinoma(224;0.00864)|Lung(119;0.0116)		CTGCCATATCGCACCATCTGT	0.433													7	38					0	0	0.003080	0	0	
SLC16A14	151473	broad.mit.edu	37	2	230910799	230910799	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:230910799T>C	uc002vqd.1	-	4	1406	c.1043A>G	c.(1042-1044)GAG>GGG	p.E348G	FBXO36_uc010fxi.1_Intron|SLC16A14_uc002vqe.2_Missense_Mutation_p.E348G|SLC16A14_uc002vqf.2_Missense_Mutation_p.E348G	NM_152527	NP_689740	Q7RTX9	MOT14_HUMAN	solute carrier family 16 (monocarboxylic acid	348	Cytoplasmic (Potential).					integral to membrane|plasma membrane	symporter activity			ovary(4)|skin(2)	6		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.149)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;7.31e-13)|all cancers(144;5.1e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00948)		GTCGTTTTGCTCCGATAAGTT	0.418													19	42					0	0	0.008871	0	0	
SP110	3431	broad.mit.edu	37	2	231033861	231033861	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:231033861G>A	uc002vqh.3	-	18	2289	c.2049C>T	c.(2047-2049)GGC>GGT	p.G683G	SP110_uc002vqg.3_Silent_p.G707G	NM_004509	NP_004500	Q9HB58	SP110_HUMAN	SP110 nuclear body protein isoform a	683			G -> S (in a breast cancer sample; somatic mutation).		interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|signal transducer activity|zinc ion binding			ovary(2)|breast(2)	4		Renal(207;0.0112)|all_lung(227;0.0223)|Lung NSC(271;0.0983)|all_hematologic(139;0.104)|Acute lymphoblastic leukemia(138;0.169)		Epithelial(121;2.61e-12)|all cancers(144;6.39e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.0097)		TCCAGAAACCGCCGTCATTGG	0.488													76	176					0	0	0.003610	0	0	
SP110	3431	broad.mit.edu	37	2	231037655	231037655	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:231037655G>A	uc002vqh.3	-	15	1851	c.1611C>T	c.(1609-1611)TGC>TGT	p.C537C	SP110_uc002vqg.3_Silent_p.C537C	NM_004509	NP_004500	Q9HB58	SP110_HUMAN	SP110 nuclear body protein isoform a	537	PHD-type.				interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|signal transducer activity|zinc ion binding			ovary(2)|breast(2)	4		Renal(207;0.0112)|all_lung(227;0.0223)|Lung NSC(271;0.0983)|all_hematologic(139;0.104)|Acute lymphoblastic leukemia(138;0.169)		Epithelial(121;2.61e-12)|all cancers(144;6.39e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.0097)		AGCACACCTCGCATTCATCCG	0.562													21	38					0	0	0.003330	0	0	
ITM2C	81618	broad.mit.edu	37	2	231740379	231740379	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:231740379C>T	uc002vqz.2	+	3	426	c.306C>T	c.(304-306)GAC>GAT	p.D102D	ITM2C_uc002vra.2_Silent_p.D55D|ITM2C_uc002vrb.2_Silent_p.D102D|ITM2C_uc002vrc.2_5'UTR|ITM2C_uc002vrd.2_5'UTR	NM_030926	NP_112188	Q9NQX7	ITM2C_HUMAN	integral membrane protein 2C isoform 1	102					negative regulation of neuron projection development|neuron differentiation	Golgi apparatus|integral to membrane|lysosomal membrane|perinuclear region of cytoplasm	beta-amyloid binding				0		Renal(207;0.0112)|all_lung(227;0.0741)|all_hematologic(139;0.0748)|Acute lymphoblastic leukemia(138;0.167)|Lung NSC(271;0.204)		Epithelial(121;8.47e-12)|all cancers(144;3.44e-09)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.0142)		TGTATGAGGACTCCCTGTCCT	0.567													25	90					0	0	0.003954	0	0	
NCL	4691	broad.mit.edu	37	2	232324987	232324987	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:232324987C>T	uc002vru.2	-	6	1057	c.916G>A	c.(916-918)GCT>ACT	p.A306T		NM_005381	NP_005372	P19338	NUCL_HUMAN	nucleolin	306					angiogenesis	cell cortex|nucleolus|ribonucleoprotein complex	nucleotide binding|protein C-terminus binding|RNA binding|telomeric DNA binding			ovary(2)|pancreas(1)	3		Ovarian(221;1.34e-05)|Renal(207;0.0112)|Lung NSC(271;0.0339)|all_lung(227;0.0616)|all_hematologic(139;0.0748)|Hepatocellular(293;0.137)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.65e-111)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.014)|COAD - Colon adenocarcinoma(134;0.141)|STAD - Stomach adenocarcinoma(1183;0.18)		AGATTGAAAGCCGTAGTCGGT	0.363													30	100					0	0	0.002445	0	0	
NCL	4691	broad.mit.edu	37	2	232325210	232325210	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:232325210C>T	uc002vru.2	-	5	1018	c.877G>A	c.(877-879)GCC>ACC	p.A293T	SNORD82_uc010fxw.1_5'Flank	NM_005381	NP_005372	P19338	NUCL_HUMAN	nucleolin	293					angiogenesis	cell cortex|nucleolus|ribonucleoprotein complex	nucleotide binding|protein C-terminus binding|RNA binding|telomeric DNA binding			ovary(2)|pancreas(1)	3		Ovarian(221;1.34e-05)|Renal(207;0.0112)|Lung NSC(271;0.0339)|all_lung(227;0.0616)|all_hematologic(139;0.0748)|Hepatocellular(293;0.137)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.65e-111)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.014)|COAD - Colon adenocarcinoma(134;0.141)|STAD - Stomach adenocarcinoma(1183;0.18)		TGTTTCTTGGCTTCAGGAGCT	0.418													10	141					0	0	0.001368	0	0	
NCL	4691	broad.mit.edu	37	2	232327993	232327993	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:232327993G>T	uc002vru.2	-	2	194	c.53C>A	c.(52-54)GCT>GAT	p.A18D	SNORD82_uc010fxw.1_5'Flank	NM_005381	NP_005372	P19338	NUCL_HUMAN	nucleolin	18					angiogenesis	cell cortex|nucleolus|ribonucleoprotein complex	nucleotide binding|protein C-terminus binding|RNA binding|telomeric DNA binding			ovary(2)|pancreas(1)	3		Ovarian(221;1.34e-05)|Renal(207;0.0112)|Lung NSC(271;0.0339)|all_lung(227;0.0616)|all_hematologic(139;0.0748)|Hepatocellular(293;0.137)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.65e-111)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.014)|COAD - Colon adenocarcinoma(134;0.141)|STAD - Stomach adenocarcinoma(1183;0.18)		TGGAGGAGGAGCCATTTTCTT	0.403													9	110					0.000442599	0.000462162	0.006214	1	0	
NMUR1	10316	broad.mit.edu	37	2	232393472	232393472	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:232393472C>T	uc002vry.3	-	2	370	c.260G>A	c.(259-261)CGC>CAC	p.R87H		NM_006056	NP_006047	Q9HB89	NMUR1_HUMAN	neuromedin U receptor 1	87	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|calcium ion transport|calcium-mediated signaling|chloride transport|smooth muscle contraction	integral to plasma membrane|membrane fraction	neuromedin U receptor activity			lung(3)|central_nervous_system(1)|pancreas(1)	5		Renal(207;0.025)|all_hematologic(139;0.094)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;8.37e-11)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.0142)		GGCCTTGTGGCGCAGGATGAC	0.622													10	41					0	0	0.008291	0	0	
DIS3L2	129563	broad.mit.edu	37	2	233128133	233128133	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:233128133G>A	uc010fxz.2	+	13	1918	c.1642G>A	c.(1642-1644)GCA>ACA	p.A548T	DIS3L2_uc002vsm.3_RNA|DIS3L2_uc002vso.2_RNA	NM_152383	NP_689596	Q8IYB7	DI3L2_HUMAN	DIS3 mitotic control homolog (S.	548							exonuclease activity|ribonuclease activity|RNA binding			ovary(1)|breast(1)|central_nervous_system(1)	3		all_hematologic(139;0.00809)|Renal(207;0.0113)|Acute lymphoblastic leukemia(138;0.0195)|all_lung(227;0.0465)|Lung NSC(271;0.136)		Epithelial(121;1.6e-13)|BRCA - Breast invasive adenocarcinoma(100;0.00104)|LUSC - Lung squamous cell carcinoma(224;0.0109)|Lung(119;0.0149)		TGTGGACGGCGCACTTCGTTT	0.547													10	24					0	0	0.000978	0	0	
ALPP	250	broad.mit.edu	37	2	233245418	233245418	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:233245418C>T	uc002vsq.2	+	8	1116	c.951C>T	c.(949-951)GCC>GCT	p.A317A	ALPP_uc002vsr.2_5'Flank	NM_001632	NP_001623	P05187	PPB1_HUMAN	placental alkaline phosphatase preproprotein	317						anchored to membrane|cell surface|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			ovary(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;4.45e-22)|Kidney(3;4.42e-11)|KIRC - Kidney renal clear cell carcinoma(3;1.9e-09)|BRCA - Breast invasive adenocarcinoma(100;0.000767)|Lung(119;0.00566)|LUSC - Lung squamous cell carcinoma(224;0.00746)|STAD - Stomach adenocarcinoma(3;0.0181)|GBM - Glioblastoma multiforme(43;0.196)		CAGAGGCTGCCCTGCGCCTGC	0.642													11	46					0	0	0.001855	0	0	
ALPPL2	251	broad.mit.edu	37	2	233272672	233272672	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:233272672G>A	uc002vss.3	+	5	646	c.593G>A	c.(592-594)CGC>CAC	p.R198H		NM_031313	NP_112603	P10696	PPBN_HUMAN	placental-like alkaline phosphatase	198					phosphorylation	anchored to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			skin(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;4.45e-22)|Kidney(3;4.42e-11)|KIRC - Kidney renal clear cell carcinoma(3;1.9e-09)|BRCA - Breast invasive adenocarcinoma(100;0.000767)|Lung(119;0.00566)|LUSC - Lung squamous cell carcinoma(224;0.00746)|STAD - Stomach adenocarcinoma(3;0.0181)|GBM - Glioblastoma multiforme(43;0.196)	Amifostine(DB01143)|Levamisole(DB00848)	GCCTCGGCCCGCCAGGAGGGG	0.672													8	39					0	0	0.006214	0	0	
ALPPL2	251	broad.mit.edu	37	2	233274433	233274433	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:233274433G>A	uc002vss.3	+	11	1503	c.1450G>A	c.(1450-1452)GCC>ACC	p.A484T		NM_031313	NP_112603	P10696	PPBN_HUMAN	placental-like alkaline phosphatase	484					phosphorylation	anchored to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			skin(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;4.45e-22)|Kidney(3;4.42e-11)|KIRC - Kidney renal clear cell carcinoma(3;1.9e-09)|BRCA - Breast invasive adenocarcinoma(100;0.000767)|Lung(119;0.00566)|LUSC - Lung squamous cell carcinoma(224;0.00746)|STAD - Stomach adenocarcinoma(3;0.0181)|GBM - Glioblastoma multiforme(43;0.196)	Amifostine(DB01143)|Levamisole(DB00848)	CATGGCCTTCGCCGCCTGCCT	0.751													3	2					0	0	0.009096	0	0	
EIF4E2	9470	broad.mit.edu	37	2	233431863	233431863	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:233431863C>T	uc002vta.2	+	6	682	c.604C>T	c.(604-606)CGA>TGA	p.R202*	EIF4E2_uc002vtb.1_Nonsense_Mutation_p.R202*|EIF4E2_uc010zmi.1_Nonsense_Mutation_p.R157*	NM_004846	NP_004837	O60573	IF4E2_HUMAN	eukaryotic translation initiation factor 4E	202					regulation of translation	cytoplasm|mRNA cap binding complex	RNA cap binding|translation initiation factor activity|ubiquitin protein ligase binding				0		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;2.3e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000912)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)		CACACTTCGGCGAGTGCTTAA	0.488													8	183					0	0	0.003080	0	0	
GIGYF2	26058	broad.mit.edu	37	2	233655446	233655446	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:233655446C>T	uc002vti.3	+	12	1088	c.751C>T	c.(751-753)CGA>TGA	p.R251*	GIGYF2_uc010zmj.1_Nonsense_Mutation_p.R251*|GIGYF2_uc002vtg.2_Nonsense_Mutation_p.R245*|GIGYF2_uc002vtj.3_Nonsense_Mutation_p.R273*|GIGYF2_uc002vtk.3_Nonsense_Mutation_p.R251*|GIGYF2_uc002vth.3_Nonsense_Mutation_p.R245*|GIGYF2_uc010zmk.1_RNA|GIGYF2_uc010zml.1_Nonsense_Mutation_p.R82*	NM_015575	NP_056390	Q6Y7W6	PERQ2_HUMAN	GRB10 interacting GYF protein 2 isoform b	251	Arg-rich.				cell death		protein binding			ovary(4)|central_nervous_system(3)	7		Breast(86;0.00279)|all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0271)|Lung NSC(271;0.0839)		Epithelial(121;7.37e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000472)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Lung(119;0.0118)|GBM - Glioblastoma multiforme(43;0.0145)		ACACATGGAACGACGTCGGAG	0.468													32	109					0	0	0.004289	0	0	
GIGYF2	26058	broad.mit.edu	37	2	233671276	233671276	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:233671276C>T	uc002vti.3	+	17	2052	c.1715C>T	c.(1714-1716)GCG>GTG	p.A572V	GIGYF2_uc010zmj.1_Missense_Mutation_p.A572V|GIGYF2_uc002vtg.2_Missense_Mutation_p.A566V|GIGYF2_uc002vtj.3_Missense_Mutation_p.A593V|GIGYF2_uc002vtk.3_Missense_Mutation_p.A572V|GIGYF2_uc002vth.3_Missense_Mutation_p.A566V|GIGYF2_uc010zmk.1_RNA|GIGYF2_uc010zml.1_Missense_Mutation_p.A403V	NM_015575	NP_056390	Q6Y7W6	PERQ2_HUMAN	GRB10 interacting GYF protein 2 isoform b	572	GYF.				cell death		protein binding			ovary(4)|central_nervous_system(3)	7		Breast(86;0.00279)|all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0271)|Lung NSC(271;0.0839)		Epithelial(121;7.37e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000472)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Lung(119;0.0118)|GBM - Glioblastoma multiforme(43;0.0145)		GTGAAGAGAGCGTGTGATGAA	0.453													7	169					0	0	0.001984	0	0	
INPP5D	3635	broad.mit.edu	37	2	234072453	234072453	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:234072453C>T	uc010zmo.1	+	11	1494	c.1341C>T	c.(1339-1341)TAC>TAT	p.Y447Y	INPP5D_uc010zmp.1_Silent_p.Y446Y	NM_001017915	NP_001017915	Q92835	SHIP1_HUMAN	SH2 containing inositol phosphatase isoform a	447					apoptosis|blood coagulation|leukocyte migration|T cell receptor signaling pathway	cytosol	inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|SH3 domain binding			ovary(1)|central_nervous_system(1)	2		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0273)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0843)		Epithelial(121;1.16e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000479)|LUSC - Lung squamous cell carcinoma(224;0.00655)|Lung(119;0.00802)|GBM - Glioblastoma multiforme(43;0.0185)		ATGACATTTACGTGATCGGCA	0.547													25	62					0	0	0.006320	0	0	
INPP5D	3635	broad.mit.edu	37	2	234102498	234102498	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:234102498G>A	uc010zmo.1	+	22	2640	c.2487G>A	c.(2485-2487)ACG>ACA	p.T829T	INPP5D_uc010zmp.1_Silent_p.T828T	NM_001017915	NP_001017915	Q92835	SHIP1_HUMAN	SH2 containing inositol phosphatase isoform a	829					apoptosis|blood coagulation|leukocyte migration|T cell receptor signaling pathway	cytosol	inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|SH3 domain binding			ovary(1)|central_nervous_system(1)	2		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0273)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0843)		Epithelial(121;1.16e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000479)|LUSC - Lung squamous cell carcinoma(224;0.00655)|Lung(119;0.00802)|GBM - Glioblastoma multiforme(43;0.0185)		CCACAGAAACGCAGCTGCCCA	0.592													18	72					0	0	0.001882	0	0	
ATG16L1	55054	broad.mit.edu	37	2	234202917	234202917	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:234202917C>T	uc002vty.2	+	18	2002	c.1745C>T	c.(1744-1746)GCG>GTG	p.A582V	ATG16L1_uc002vtx.1_Missense_Mutation_p.A419V|ATG16L1_uc002vua.2_Missense_Mutation_p.A563V|ATG16L1_uc002vub.2_Missense_Mutation_p.A440V|ATG16L1_uc002vtz.2_Missense_Mutation_p.A403V|ATG16L1_uc002vud.3_Missense_Mutation_p.A498V	NM_030803	NP_110430	Q676U5	A16L1_HUMAN	APG16 autophagy 16-like isoform 1	582	WD 7.				autophagic vacuole assembly|protein homooligomerization|protein transport	autophagic vacuole|pre-autophagosomal structure membrane	protein binding				0		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0179)|Acute lymphoblastic leukemia(138;0.0327)|Lung NSC(271;0.0539)		Epithelial(121;1.53e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000379)|LUSC - Lung squamous cell carcinoma(224;0.00619)|Lung(119;0.00732)|GBM - Glioblastoma multiforme(43;0.11)		TCCATCAATGCGGTGGCGTGG	0.522													7	20					0	0	0.006214	0	0	
UGT1A8	54576	broad.mit.edu	37	2	234526664	234526664	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:234526664G>A	uc002vup.2	+	1	374	c.311G>A	c.(310-312)AGT>AAT	p.S104N	UGT1A8_uc010zmv.1_Missense_Mutation_p.S104N	NM_019076	NP_061949	Q9HAW9	UD18_HUMAN	UDP glycosyltransferase 1 family, polypeptide A8	104					drug metabolic process|fatty acid metabolic process|flavone metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	enzyme inhibitor activity|fatty acid binding|glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity|steroid binding			ovary(2)	2		Breast(86;0.000766)|all_lung(227;0.00271)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0334)|Lung NSC(271;0.0461)|Lung SC(224;0.128)		Epithelial(121;2.56e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000482)|Lung(119;0.00404)|LUSC - Lung squamous cell carcinoma(224;0.008)		CAAGTACGAAGTTTGTTTTCT	0.373													6	125					0	0	0.001984	0	0	
TRPM8	79054	broad.mit.edu	37	2	234851360	234851360	+	Silent	SNP	C	A	A	rs35201441		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:234851360C>A	uc002vvh.2	+	6	707	c.667C>A	c.(667-669)CGG>AGG	p.R223R	TRPM8_uc010fyj.2_5'UTR|TRPM8_uc002vvi.3_Silent_p.R173R|TRPM8_uc002vvj.3_Silent_p.R146R	NM_024080	NP_076985	Q7Z2W7	TRPM8_HUMAN	transient receptor potential cation channel,	223	Cytoplasmic (Potential).					integral to membrane				skin(4)	4		Breast(86;0.00205)|Renal(207;0.00694)|all_lung(227;0.0129)|Lung NSC(271;0.0408)|all_hematologic(139;0.0753)|Acute lymphoblastic leukemia(138;0.224)		Epithelial(121;1.19e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000139)|Lung(119;0.00758)|LUSC - Lung squamous cell carcinoma(224;0.0108)	Menthol(DB00825)	GGTCTCCAACCGGGACACCCT	0.557													12	94					0.00136819	0.00142269	0.001368	1	0	
TRPM8	79054	broad.mit.edu	37	2	234869622	234869622	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:234869622C>T	uc002vvh.2	+	12	1605	c.1565C>T	c.(1564-1566)ACG>ATG	p.T522M	TRPM8_uc010fyj.2_Missense_Mutation_p.T210M	NM_024080	NP_076985	Q7Z2W7	TRPM8_HUMAN	transient receptor potential cation channel,	522	Cytoplasmic (Potential).					integral to membrane				skin(4)	4		Breast(86;0.00205)|Renal(207;0.00694)|all_lung(227;0.0129)|Lung NSC(271;0.0408)|all_hematologic(139;0.0753)|Acute lymphoblastic leukemia(138;0.224)		Epithelial(121;1.19e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000139)|Lung(119;0.00758)|LUSC - Lung squamous cell carcinoma(224;0.0108)	Menthol(DB00825)	GCCCTCCTCACGTTTGTCTGG	0.512													5	63					0	0	0.000602	0	0	
SH3BP4	23677	broad.mit.edu	37	2	235950141	235950141	+	Missense_Mutation	SNP	G	A	A	rs144140235		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:235950141G>A	uc002vvp.2	+	4	1121	c.728G>A	c.(727-729)CGC>CAC	p.R243H	SH3BP4_uc010fym.2_Missense_Mutation_p.R243H|SH3BP4_uc002vvq.2_Missense_Mutation_p.R243H	NM_014521	NP_055336	Q9P0V3	SH3B4_HUMAN	SH3-domain binding protein 4	243					endocytosis	clathrin-coated vesicle|coated pit|nucleus	protein binding			skin(3)|ovary(1)	4		Breast(86;0.000332)|Renal(207;0.00339)|all_lung(227;0.00458)|all_hematologic(139;0.0296)|Lung NSC(271;0.0419)		Epithelial(121;7.66e-20)|BRCA - Breast invasive adenocarcinoma(100;0.000402)|Lung(119;0.00299)|LUSC - Lung squamous cell carcinoma(224;0.00645)|GBM - Glioblastoma multiforme(43;0.237)		AGAAGCAAGCGCTCCTACAGT	0.572													13	110					0	0	0.002450	0	0	
AGAP1	116987	broad.mit.edu	37	2	236653360	236653360	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:236653360G>A	uc002vvs.2	+	5	1010	c.415G>A	c.(415-417)GCT>ACT	p.A139T	AGAP1_uc002vvt.2_Missense_Mutation_p.A139T	NM_001037131	NP_001032208	Q9UPQ3	AGAP1_HUMAN	centaurin, gamma 2 isoform 1	139	Small GTPase-like.				protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm	ARF GTPase activator activity|GTP binding|zinc ion binding			ovary(2)|skin(1)	3						GTGGGTGGACGCTGTTATATT	0.502													16	74					0	0	0.004990	0	0	
PRR21	643905	broad.mit.edu	37	2	240981392	240981392	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:240981392G>A	uc010zod.1	-	1	1008	c.1008C>T	c.(1006-1008)ATC>ATT	p.I336I		NM_001080835	NP_001074304	Q8WXC7	PRR21_HUMAN	proline rich 21	336										ovary(1)|skin(1)	2						AAGAGGCATGGATGAAGGGCC	0.582													7	94					0	0	0.008291	0	0	
RNPEPL1	57140	broad.mit.edu	37	2	241516387	241516387	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:241516387C>T	uc002vzi.2	+	10	1764	c.1171C>T	c.(1171-1173)CGG>TGG	p.R391W	RNPEPL1_uc010fzf.2_Missense_Mutation_p.R297W|RNPEPL1_uc002vzj.2_Missense_Mutation_p.R39W	NM_018226	NP_060696	Q9HAU8	RNPL1_HUMAN	arginyl aminopeptidase (aminopeptidase B)-like	391					leukotriene biosynthetic process|proteolysis		aminopeptidase activity|metallopeptidase activity|zinc ion binding			large_intestine(1)|skin(1)	2		all_epithelial(40;1.13e-11)|Breast(86;0.000169)|Renal(207;0.00571)|Ovarian(221;0.104)|all_hematologic(139;0.182)|all_lung(227;0.204)|Melanoma(123;0.238)		Epithelial(32;3.05e-31)|all cancers(36;8.2e-29)|OV - Ovarian serous cystadenocarcinoma(60;8.55e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.12e-06)|Lung(119;0.00168)|Colorectal(34;0.005)|LUSC - Lung squamous cell carcinoma(224;0.00813)|COAD - Colon adenocarcinoma(134;0.0322)		CCACAGGGTGCGGCGCTTCCT	0.647													11	24					0	0	0.001368	0	0	
CAPN10	11132	broad.mit.edu	37	2	241537370	241537370	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:241537370C>T	uc002vzk.1	+	10	1993	c.1809C>T	c.(1807-1809)TGC>TGT	p.C603C	CAPN10_uc002vzl.1_Silent_p.C448C|CAPN10_uc002vzm.1_Silent_p.C69C|CAPN10_uc002vzn.1_Silent_p.C475C|CAPN10_uc002vzo.1_RNA|CAPN10_uc010fzg.1_RNA|CAPN10_uc002vzp.1_RNA|CAPN10_uc002vzq.1_Intron	NM_023083	NP_075571	Q9HC96	CAN10_HUMAN	calpain 10 isoform a	603	Domain III 2.				actin cytoskeleton reorganization|cellular response to insulin stimulus|positive regulation of apoptosis|positive regulation of glucose import|positive regulation of insulin secretion|positive regulation of intracellular transport|proteolysis	cytosol|plasma membrane	calcium-dependent cysteine-type endopeptidase activity|cytoskeletal protein binding|SNARE binding			ovary(3)|large_intestine(2)|lung(1)	6		all_epithelial(40;1.72e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0294)|all_neural(83;0.0459)|Lung NSC(271;0.094)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;1.13e-31)|all cancers(36;3.24e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.82e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.1e-06)|Lung(119;0.00168)|Colorectal(34;0.00495)|LUSC - Lung squamous cell carcinoma(224;0.00813)|COAD - Colon adenocarcinoma(134;0.032)		TGCTGAGCTGCGTGCCACATC	0.682													4	8					0	0	0.009096	0	0	
GPR35	2859	broad.mit.edu	37	2	241569890	241569890	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:241569890C>T	uc002vzs.1	+	1	1096	c.521C>T	c.(520-522)GCG>GTG	p.A174V	GPR35_uc010fzh.1_Missense_Mutation_p.A205V|GPR35_uc010fzi.1_Missense_Mutation_p.A205V	NM_005301	NP_005292	Q9HC97	GPR35_HUMAN	G protein-coupled receptor 35	174	Extracellular (Potential).			A -> R (in Ref. 1; AAC52028).		integral to plasma membrane	G-protein coupled receptor activity			skin(2)|pancreas(1)	3		all_epithelial(40;7.49e-12)|Breast(86;0.000148)|Renal(207;0.00571)|Ovarian(221;0.104)|all_neural(83;0.107)|all_hematologic(139;0.182)|all_lung(227;0.186)|Melanoma(123;0.238)		Epithelial(32;5.29e-32)|all cancers(36;1.38e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.13e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.02e-06)|Lung(119;0.00163)|Colorectal(34;0.00463)|LUSC - Lung squamous cell carcinoma(224;0.008)|COAD - Colon adenocarcinoma(134;0.031)		AACTCCATGGCGTTCCCGCTG	0.657													11	28					0	0	0.008291	0	0	
KIF1A	547	broad.mit.edu	37	2	241683367	241683367	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:241683367G>A	uc002vzy.2	-	31	3419	c.3273C>T	c.(3271-3273)GAC>GAT	p.D1091D	KIF1A_uc010fzk.2_Silent_p.D1192D|KIF1A_uc002vzz.1_Silent_p.D1192D	NM_004321	NP_004312	Q12756	KIF1A_HUMAN	axonal transport of synaptic vesicles	1091					anterograde axon cargo transport	cytoplasm|microtubule|nucleus	ATP binding|microtubule motor activity			lung(1)	1		all_epithelial(40;1.35e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0295)|all_neural(83;0.0459)|Lung NSC(271;0.0942)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;6.12e-30)|all cancers(36;3.46e-27)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-14)|Kidney(56;5e-09)|KIRC - Kidney renal clear cell carcinoma(57;5e-08)|BRCA - Breast invasive adenocarcinoma(100;5.87e-06)|Lung(119;0.00209)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Colorectal(34;0.0282)|COAD - Colon adenocarcinoma(134;0.176)		ACCTGAGCACGTCCTTGCAGA	0.587													4	20					0	0	0.000978	0	0	
PASK	23178	broad.mit.edu	37	2	242051680	242051680	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:242051680C>T	uc002wao.1	-	15	3600	c.3508G>A	c.(3508-3510)GCA>ACA	p.A1170T	PASK_uc010zol.1_Missense_Mutation_p.A984T|PASK_uc010zom.1_Missense_Mutation_p.A1135T|PASK_uc010fzl.1_Missense_Mutation_p.A1177T|PASK_uc010zon.1_Missense_Mutation_p.A951T	NM_015148	NP_055963	Q96RG2	PASK_HUMAN	PAS domain containing serine/threonine kinase	1170	Protein kinase.				regulation of transcription, DNA-dependent	Golgi apparatus	ATP binding|identical protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(4)|lung(1)|skin(1)	6		all_cancers(19;4.46e-39)|all_epithelial(40;1.34e-17)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00481)|Lung NSC(271;0.017)|Ovarian(221;0.0228)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.34e-31)|all cancers(36;1e-28)|OV - Ovarian serous cystadenocarcinoma(60;3.53e-14)|Kidney(56;4.31e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.35e-08)|BRCA - Breast invasive adenocarcinoma(100;5.64e-06)|Lung(119;0.000596)|LUSC - Lung squamous cell carcinoma(224;0.00481)|Colorectal(34;0.014)|COAD - Colon adenocarcinoma(134;0.0968)		ACTTCCGGTGCACAGTACTCG	0.542													7	40					0	0	0.004482	0	0	
PASK	23178	broad.mit.edu	37	2	242075305	242075305	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:242075305G>A	uc002wao.1	-	8	1379	c.1287C>T	c.(1285-1287)GAC>GAT	p.D429D	PASK_uc010zol.1_Silent_p.D243D|PASK_uc010zom.1_Silent_p.D394D|PASK_uc010fzl.1_Silent_p.D429D|PASK_uc010zon.1_Silent_p.D210D|PASK_uc002wap.2_5'Flank|PASK_uc002waq.2_Silent_p.D429D	NM_015148	NP_055963	Q96RG2	PASK_HUMAN	PAS domain containing serine/threonine kinase	429					regulation of transcription, DNA-dependent	Golgi apparatus	ATP binding|identical protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(4)|lung(1)|skin(1)	6		all_cancers(19;4.46e-39)|all_epithelial(40;1.34e-17)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00481)|Lung NSC(271;0.017)|Ovarian(221;0.0228)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.34e-31)|all cancers(36;1e-28)|OV - Ovarian serous cystadenocarcinoma(60;3.53e-14)|Kidney(56;4.31e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.35e-08)|BRCA - Breast invasive adenocarcinoma(100;5.64e-06)|Lung(119;0.000596)|LUSC - Lung squamous cell carcinoma(224;0.00481)|Colorectal(34;0.014)|COAD - Colon adenocarcinoma(134;0.0968)		CCTCAGCTGGGTCCTGGCCCT	0.637													5	55					0	0	0.001168	0	0	
PASK	23178	broad.mit.edu	37	2	242077410	242077410	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:242077410G>A	uc002wao.1	-	6	926	c.834C>T	c.(832-834)ATC>ATT	p.I278I	PASK_uc010zol.1_Silent_p.I92I|PASK_uc010zom.1_Intron|PASK_uc010fzl.1_Silent_p.I278I|PASK_uc010zon.1_Silent_p.I59I|PASK_uc002waq.2_Silent_p.I278I	NM_015148	NP_055963	Q96RG2	PASK_HUMAN	PAS domain containing serine/threonine kinase	278					regulation of transcription, DNA-dependent	Golgi apparatus	ATP binding|identical protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(4)|lung(1)|skin(1)	6		all_cancers(19;4.46e-39)|all_epithelial(40;1.34e-17)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00481)|Lung NSC(271;0.017)|Ovarian(221;0.0228)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.34e-31)|all cancers(36;1e-28)|OV - Ovarian serous cystadenocarcinoma(60;3.53e-14)|Kidney(56;4.31e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.35e-08)|BRCA - Breast invasive adenocarcinoma(100;5.64e-06)|Lung(119;0.000596)|LUSC - Lung squamous cell carcinoma(224;0.00481)|Colorectal(34;0.014)|COAD - Colon adenocarcinoma(134;0.0968)		GCACAGAAGGGATCAGGTCTG	0.577													14	22					0	0	0.003163	0	0	
PASK	23178	broad.mit.edu	37	2	242078072	242078072	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:242078072G>A	uc002wao.1	-	5	830	c.738C>T	c.(736-738)AGC>AGT	p.S246S	PASK_uc010zol.1_Silent_p.S60S|PASK_uc010zom.1_Silent_p.S246S|PASK_uc010fzl.1_Silent_p.S246S|PASK_uc010zon.1_Silent_p.S27S|PASK_uc002waq.2_Silent_p.S246S	NM_015148	NP_055963	Q96RG2	PASK_HUMAN	PAS domain containing serine/threonine kinase	246					regulation of transcription, DNA-dependent	Golgi apparatus	ATP binding|identical protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(4)|lung(1)|skin(1)	6		all_cancers(19;4.46e-39)|all_epithelial(40;1.34e-17)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00481)|Lung NSC(271;0.017)|Ovarian(221;0.0228)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.34e-31)|all cancers(36;1e-28)|OV - Ovarian serous cystadenocarcinoma(60;3.53e-14)|Kidney(56;4.31e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.35e-08)|BRCA - Breast invasive adenocarcinoma(100;5.64e-06)|Lung(119;0.000596)|LUSC - Lung squamous cell carcinoma(224;0.00481)|Colorectal(34;0.014)|COAD - Colon adenocarcinoma(134;0.0968)		CACTCACATCGCTCTGGAAAG	0.592													5	52					0	0	0.000602	0	0	
HDLBP	3069	broad.mit.edu	37	2	242179074	242179074	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:242179074G>A	uc002waz.2	-	19	2781	c.2553C>T	c.(2551-2553)GGC>GGT	p.G851G	HDLBP_uc002wba.2_Silent_p.G851G|HDLBP_uc002wbb.2_Silent_p.G803G	NM_203346	NP_976221	Q00341	VIGLN_HUMAN	high density lipoprotein binding protein	851	KH 10.				cholesterol metabolic process|lipid transport	cytoplasm|high-density lipoprotein particle|nucleus|plasma membrane	lipid binding|protein binding|RNA binding			breast(3)|skin(1)	4		all_cancers(19;7.77e-41)|all_epithelial(40;1.74e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.0121)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;8.13e-34)|all cancers(36;4.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;2.34e-15)|Kidney(56;3.72e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.76e-08)|BRCA - Breast invasive adenocarcinoma(100;3.38e-06)|Lung(119;0.000109)|LUSC - Lung squamous cell carcinoma(224;0.000964)|Colorectal(34;0.0132)|COAD - Colon adenocarcinoma(134;0.0928)		AGTCCTTGGCGCCCTTGAGGG	0.602													22	86					0	0	0.001882	0	0	
SEPT2	4735	broad.mit.edu	37	2	242285659	242285659	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:242285659C>T	uc002wbc.2	+	11	1342	c.921C>T	c.(919-921)GGC>GGT	p.G307G	SEPT2_uc002wbd.2_Silent_p.G307G|SEPT2_uc002wbf.2_Silent_p.G307G|SEPT2_uc002wbg.2_Silent_p.G307G|SEPT2_uc002wbh.2_Silent_p.G317G|SEPT2_uc010zop.1_Silent_p.G342G	NM_001008491	NP_001008491	Q15019	SEPT2_HUMAN	septin 2	307					cell division|mitosis	actin cytoskeleton|cleavage furrow|condensed chromosome kinetochore|midbody|nucleolus|septin complex|spindle	GTP binding			central_nervous_system(1)	1		all_cancers(19;7.62e-41)|all_epithelial(40;1.71e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.24e-34)|all cancers(36;7.15e-32)|OV - Ovarian serous cystadenocarcinoma(60;1.21e-15)|Kidney(56;3.21e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;3.16e-06)|Lung(119;7.81e-05)|LUSC - Lung squamous cell carcinoma(224;0.000742)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0889)		TCAAGAGAGGCGGCAGGTCAT	0.502													4	31					0	0	0.009096	0	0	
FARP2	9855	broad.mit.edu	37	2	242375909	242375909	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:242375909A>G	uc002wbi.1	+	12	1231	c.1114A>G	c.(1114-1116)ACC>GCC	p.T372A	FARP2_uc010zoq.1_Missense_Mutation_p.T372A|FARP2_uc010zor.1_Missense_Mutation_p.T372A	NM_014808	NP_055623	O94887	FARP2_HUMAN	FERM, RhoGEF and pleckstrin domain protein 2	372					axon guidance|neuron remodeling|Rac protein signal transduction|regulation of Rho protein signal transduction	cytoskeleton|cytosol|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3		all_cancers(19;4.88e-34)|all_epithelial(40;4.81e-14)|Breast(86;0.000141)|Renal(207;0.0143)|all_lung(227;0.0344)|Lung NSC(271;0.0886)|Ovarian(221;0.0905)|Esophageal squamous(248;0.131)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;1.81e-33)|all cancers(36;1.61e-30)|OV - Ovarian serous cystadenocarcinoma(60;6.83e-15)|Kidney(56;1.19e-08)|KIRC - Kidney renal clear cell carcinoma(57;8.98e-08)|BRCA - Breast invasive adenocarcinoma(100;1.49e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00125)|Colorectal(34;0.0199)|COAD - Colon adenocarcinoma(134;0.121)		GCACAGCAAGACCCACACGTC	0.493													8	99					0	0	0.006214	0	0	
C2orf85	285093	broad.mit.edu	37	2	242814783	242814783	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:242814783G>A	uc010fzu.1	+	2	1099	c.1076G>A	c.(1075-1077)GGC>GAC	p.G359D		NM_173821	NP_776182	Q14D33	CB085_HUMAN	hypothetical protein LOC285093	359						integral to membrane				ovary(1)	1						CCCACCGATGGCCCTGTGGCC	0.602													7	13					0	0	0.004482	0	0	
DEFB129	140881	broad.mit.edu	37	20	210132	210132	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:210132C>T	uc002wda.2	+	2	277	c.272C>T	c.(271-273)GCT>GTT	p.A91V		NM_080831	NP_543021	Q9H1M3	DB129_HUMAN	beta defensin 129 precursor	91					defense response to bacterium	extracellular region				ovary(1)	1		all_cancers(10;7.65e-05)|Lung NSC(37;0.0417)|all_epithelial(17;0.0676)|all_lung(30;0.0713)|Breast(17;0.231)	OV - Ovarian serous cystadenocarcinoma(29;0.122)			AATTCTAGTGCTGTGATACAA	0.353													4	101					0	0	0.009096	0	0	
C20orf96	140680	broad.mit.edu	37	20	257710	257710	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:257710T>G	uc002wde.1	-	8	939	c.800A>C	c.(799-801)AAA>ACA	p.K267T	C20orf96_uc002wdc.2_Missense_Mutation_p.K214T|C20orf96_uc002wdd.2_Missense_Mutation_p.K232T|C20orf96_uc010zpi.1_Missense_Mutation_p.K214T|C20orf96_uc010zpj.1_Missense_Mutation_p.K232T|C20orf96_uc010zpk.1_Missense_Mutation_p.K205T	NM_153269	NP_695001	Q9NUD7	CT096_HUMAN	hypothetical protein LOC140680	267	Poly-Lys.|Potential.										0		all_cancers(10;0.00959)|Lung NSC(37;0.227)	OV - Ovarian serous cystadenocarcinoma(29;0.149)			CAGAATTTTTTTCTTCTTCTT	0.562													13	246					0	0	0.006122	0	0	
C20orf96	140680	broad.mit.edu	37	20	257712	257712	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:257712C>T	uc002wde.1	-	8	937	c.798G>A	c.(796-798)AAG>AAA	p.K266K	C20orf96_uc002wdc.2_Silent_p.K213K|C20orf96_uc002wdd.2_Silent_p.K231K|C20orf96_uc010zpi.1_Silent_p.K213K|C20orf96_uc010zpj.1_Silent_p.K231K|C20orf96_uc010zpk.1_Silent_p.K204K	NM_153269	NP_695001	Q9NUD7	CT096_HUMAN	hypothetical protein LOC140680	266	Poly-Lys.|Potential.										0		all_cancers(10;0.00959)|Lung NSC(37;0.227)	OV - Ovarian serous cystadenocarcinoma(29;0.149)			GAATTTTTTTCTTCTTCTTCT	0.557													8	252					0	0	0.001855	0	0	
C20orf54	113278	broad.mit.edu	37	20	745857	745857	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:745857C>T	uc002wed.3	-	2	901	c.562G>A	c.(562-564)GCA>ACA	p.A188T	C20orf54_uc002wee.2_Missense_Mutation_p.A188T	NM_033409	NP_212134	Q9NQ40	RFT2_HUMAN	hypothetical protein LOC113278 precursor	188					sensory perception of sound	integral to plasma membrane	riboflavin transporter activity			ovary(2)	2						GGTACCTGTGCGATGTCAGTC	0.433													7	58					0	0	0.001984	0	0	
PSMF1	9491	broad.mit.edu	37	20	1145099	1145099	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:1145099C>T	uc002wel.3	+	7	911	c.743C>T	c.(742-744)CCC>CTC	p.P248L	PSMF1_uc010zpo.1_Missense_Mutation_p.P160L|PSMF1_uc002wem.3_Missense_Mutation_p.P248L|PSMF1_uc010zpp.1_Missense_Mutation_p.P186L|PSMF1_uc002wen.3_Missense_Mutation_p.P248L|PSMF1_uc002wep.3_Missense_Mutation_p.P199L	NM_178578	NP_848693	Q92530	PSMF1_HUMAN	proteasome inhibitor subunit 1	248	Pro-rich.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome core complex	endopeptidase inhibitor activity|protein binding				0						CCCTTTGGACCCATTGGGACC	0.483													4	146					0	0	0.001168	0	0	
SNPH	9751	broad.mit.edu	37	20	1277814	1277814	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:1277814C>T	uc002wes.2	+	4	312	c.76C>T	c.(76-78)CGG>TGG	p.R26W	SNPH_uc002wet.2_Missense_Mutation_p.R70W	NM_014723	NP_055538	O15079	SNPH_HUMAN	syntaphilin	26					synaptic vesicle docking involved in exocytosis	cell junction|integral to membrane|synapse|synaptosome	syntaxin-1 binding			ovary(2)	2						TGTGAGCGTGCGGGATGCCTA	0.637													6	24					0	0	0.004482	0	0	
SIRPB2	284759	broad.mit.edu	37	20	1459011	1459011	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:1459011G>A	uc002wfg.2	-	3	921	c.693C>T	c.(691-693)AAC>AAT	p.N231N	SIRPB2_uc002wfh.3_Silent_p.N133N|SIRPB2_uc010zpr.1_Silent_p.N93N	NM_001122962	NP_001116434	Q5JXA9	SIRB2_HUMAN	signal-regulatory protein beta 2 isoform 1	231	Ig-like V-type 2.|Extracellular (Potential).					integral to membrane					0						CACTGGAGACGTTTTGCAGAA	0.522													12	102					0	0	0.004007	0	0	
SIRPB1	10326	broad.mit.edu	37	20	1558987	1558987	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:1558987G>A	uc010gai.2	-	2	529	c.430C>T	c.(430-432)CGC>TGC	p.R144C	SIRPB1_uc002wfk.3_Missense_Mutation_p.R144C	NM_006065	NP_006056	O00241	SIRB1_HUMAN	signal-regulatory protein beta 1 isoform 1	144	Extracellular (Potential).				cell junction assembly|cell surface receptor linked signaling pathway	integral to plasma membrane	protein binding			ovary(1)	1						TACTCACCGCGCACAGACAGC	0.552													20	110					0	0	0.010504	0	0	
SIRPG	55423	broad.mit.edu	37	20	1616842	1616842	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:1616842G>A	uc002wfm.1	-	3	805	c.740C>T	c.(739-741)GCC>GTC	p.A247V	SIRPG_uc002wfn.1_Missense_Mutation_p.A247V|SIRPG_uc002wfo.1_Intron|uc002wfp.1_Intron	NM_018556	NP_061026	Q9P1W8	SIRPG_HUMAN	signal-regulatory protein gamma isoform 1	247	Extracellular (Potential).				blood coagulation|cell adhesion|cell junction assembly|cell-cell signaling|intracellular signal transduction|leukocyte migration|negative regulation of cell proliferation|positive regulation of cell proliferation|positive regulation of cell-cell adhesion|positive regulation of T cell activation	integral to membrane|intracellular|plasma membrane	protein binding			ovary(1)	1						ACCTCGGATGGCCTCAGACAA	0.627													9	60					0	0	0.006214	0	0	
STK35	140901	broad.mit.edu	37	20	2097969	2097969	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:2097969G>A	uc010gak.2	+	3	1550	c.1550G>A	c.(1549-1551)CGG>CAG	p.R517Q	STK35_uc010zpu.1_Intron|STK35_uc002wfw.3_Missense_Mutation_p.R384Q	NM_080836	NP_543026	Q8TDR2	STK35_HUMAN	serine/threonine kinase 35	517	Protein kinase.					cytoplasm|nucleolus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1						CCACAGGACCGGCCTGATGCC	0.473													12	146					0	0	0.001368	0	0	
TGM3	7053	broad.mit.edu	37	20	2312868	2312868	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:2312868C>T	uc002wfx.3	+	10	1651	c.1554C>T	c.(1552-1554)AAC>AAT	p.N518N		NM_003245	NP_003236	Q08188	TGM3_HUMAN	transglutaminase 3 precursor	518					cell envelope organization|hair follicle morphogenesis|keratinization|peptide cross-linking|protein tetramerization	cytoplasm|extrinsic to internal side of plasma membrane	acyltransferase activity|calcium ion binding|GDP binding|GTP binding|GTPase activity|magnesium ion binding|protein-glutamine gamma-glutamyltransferase activity			large_intestine(4)|ovary(3)|breast(1)|skin(1)	9					L-Glutamine(DB00130)	TGACAGTGAACATGACAGCCT	0.532													5	44					0	0	0.000602	0	0	
SNRPB	6628	broad.mit.edu	37	20	2442418	2442418	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:2442418C>T	uc002wfz.1	-	7	870	c.707G>A	c.(706-708)CGC>CAC	p.R236H	SNRPB_uc002wga.1_3'UTR|SNRPB_uc010zpv.1_3'UTR|SNRPB_uc002wgb.2_3'UTR	NM_198216	NP_937859	P14678	RSMB_HUMAN	small nuclear ribonucleoprotein polypeptide B/B'	236	Repeat-rich region.|				histone mRNA metabolic process|ncRNA metabolic process|spliceosomal snRNP assembly|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytosol|nucleoplasm|U12-type spliceosomal complex|U7 snRNP	protein binding|protein binding|RNA binding			ovary(1)	1						CCTTGGTGGGCGCATTCCCGG	0.542													10	41					0	0	0.000978	0	0	
TMC2	117532	broad.mit.edu	37	20	2621828	2621828	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:2621828C>T	uc002wgf.1	+	20	2567	c.2552C>T	c.(2551-2553)GCG>GTG	p.A851V	TMC2_uc002wgg.1_Missense_Mutation_p.A835V	NM_080751	NP_542789	Q8TDI7	TMC2_HUMAN	transmembrane cochlear-expressed protein 2	851	Cytoplasmic (Potential).					integral to membrane				ovary(3)	3						GACAAGAAGGCGCAGGGCCCT	0.567													8	76					0	0	0.006214	0	0	
C20orf141	128653	broad.mit.edu	37	20	2796188	2796188	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:2796188G>A	uc010gat.2	+	3	348	c.265G>A	c.(265-267)GCA>ACA	p.A89T	C20orf141_uc002wgv.1_Intron|C20orf141_uc002wgw.2_Missense_Mutation_p.A89T|uc002wgx.1_5'Flank|uc002wgy.1_5'Flank	NM_080739	NP_542777	Q9NUB4	CT141_HUMAN	hypothetical protein LOC128653	89	Leu-rich.					integral to membrane					0						CCACAGGCCCGCAGGTCACAC	0.632													11	28					0	0	0.001368	0	0	
FAM113A	64773	broad.mit.edu	37	20	2818955	2818955	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:2818955C>T	uc002wgz.1	-	6	1261	c.764G>A	c.(763-765)CGC>CAC	p.R255H	FAM113A_uc002whb.1_Missense_Mutation_p.R106H|FAM113A_uc002wha.1_Missense_Mutation_p.R106H|FAM113A_uc010zqa.1_Missense_Mutation_p.R102H|FAM113A_uc002whc.1_Missense_Mutation_p.R204H|VPS16_uc002whe.2_5'Flank|VPS16_uc002whf.2_5'Flank|VPS16_uc002whd.2_5'Flank	NM_022760	NP_073597	Q9H1Q7	F113A_HUMAN	hypothetical protein LOC64773	255	His-rich.						hydrolase activity|protein binding			ovary(2)	2						TGAGAGGTGGCGGTGTGCATG	0.617													9	51					0	0	0.001368	0	0	
VPS16	64601	broad.mit.edu	37	20	2840446	2840446	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:2840446C>T	uc002whe.2	+	2	183	c.135C>T	c.(133-135)GGC>GGT	p.G45G	VPS16_uc002whf.2_Silent_p.G45G|VPS16_uc002whd.2_RNA|VPS16_uc002whg.2_5'Flank	NM_022575	NP_072097	Q9H269	VPS16_HUMAN	vacuolar protein sorting 16 isoform 1	45					intracellular protein transport	early endosome|HOPS complex|late endosome membrane|lysosomal membrane|recycling endosome				ovary(2)|pancreas(1)|skin(1)	4						CCTATGGGGGCCCCATTGGTA	0.572													42	134					0	0	0.003214	0	0	
VPS16	64601	broad.mit.edu	37	20	2844008	2844008	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:2844008C>T	uc002whe.2	+	15	1488	c.1440C>T	c.(1438-1440)GGC>GGT	p.G480G	VPS16_uc002whh.2_RNA|PTPRA_uc002whj.2_5'Flank|VPS16_uc002whf.2_Silent_p.G336G|VPS16_uc002whd.2_RNA|VPS16_uc002whg.2_Silent_p.G166G|VPS16_uc002whi.2_5'Flank	NM_022575	NP_072097	Q9H269	VPS16_HUMAN	vacuolar protein sorting 16 isoform 1	480					intracellular protein transport	early endosome|HOPS complex|late endosome membrane|lysosomal membrane|recycling endosome				ovary(2)|pancreas(1)|skin(1)	4						AAGTACAGGGCGTCAGCAGGA	0.582													5	92					0	0	0.000602	0	0	
PTPRA	5786	broad.mit.edu	37	20	2945651	2945651	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:2945651C>T	uc010zqb.1	+	5	611	c.218C>T	c.(217-219)CCC>CTC	p.P73L	PTPRA_uc002whj.2_Missense_Mutation_p.P73L|PTPRA_uc010zqc.1_Intron|PTPRA_uc002whk.2_Missense_Mutation_p.P73L|PTPRA_uc010zqd.1_Missense_Mutation_p.P84L|PTPRA_uc002whl.2_Missense_Mutation_p.P73L|PTPRA_uc002whm.2_5'UTR|PTPRA_uc002whn.2_Missense_Mutation_p.P73L			P18433	PTPRA_HUMAN	SubName: Full=cDNA FLJ60525, highly similar to Receptor-type tyrosine-protein phosphatase alpha (EC 3.1.3.48);	73	Extracellular (Potential).				axon guidance|protein phosphorylation	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)	1						ACTCTGGGACCCACCTATTTA	0.418													11	158					0	0	0.001368	0	0	
AVP	551	broad.mit.edu	37	20	3065221	3065221	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:3065221A>C	uc002whu.2	-	1	150	c.100T>G	c.(100-102)TCC>GCC	p.S34A		NM_000490	NP_000481	P01185	NEU2_HUMAN	arginine vasopressin-neurophysin II	34					cell-cell signaling|ERK1 and ERK2 cascade|generation of precursor metabolites and energy|negative regulation of apoptosis|negative regulation of release of cytochrome c from mitochondria|positive regulation of gene expression|positive regulation of peptidyl-serine phosphorylation|protein kinase C signaling cascade|sodium-independent organic anion transport|transmembrane transport|vasoconstriction|water transport	cytosol|soluble fraction	caspase inhibitor activity|neurohypophyseal hormone activity|protein kinase activity|signal transducer activity|V1A vasopressin receptor binding				0				COAD - Colon adenocarcinoma(99;0.00643)		TCCAGGTCGGACATGGCCCTC	0.642													7	136					0	0	0.004482	0	0	
FASTKD5	60493	broad.mit.edu	37	20	3128084	3128084	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:3128084G>A	uc002whz.2	-	2	1944	c.1633C>T	c.(1633-1635)CTG>TTG	p.L545L	uc002whv.1_Intron|UBOX5_uc002whw.2_Intron|UBOX5_uc002whx.2_Intron|UBOX5_uc002why.1_Intron	NM_021826	NP_068598	Q7L8L6	FAKD5_HUMAN	FAST kinase domains 5	545					apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity				0						AAATACCACAGCAATTCAGAC	0.453													8	91					0	0	0.004482	0	0	
SLC4A11	83959	broad.mit.edu	37	20	3209061	3209061	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:3209061G>A	uc002wig.2	-	18	2498	c.2450C>T	c.(2449-2451)CCG>CTG	p.P817L	SLC4A11_uc010zqe.1_Missense_Mutation_p.P844L|SLC4A11_uc002wih.2_RNA|SLC4A11_uc010zqf.1_Missense_Mutation_p.P801L	NM_032034	NP_114423	Q8NBS3	S4A11_HUMAN	solute carrier family 4 member 11	817	Membrane (bicarbonate transporter).				cellular cation homeostasis|fluid transport|phosphoenolpyruvate-dependent sugar phosphotransferase system	basolateral plasma membrane|integral to membrane	bicarbonate transmembrane transporter activity|borate transmembrane transporter activity|hydrogen ion channel activity|inorganic anion exchanger activity|sodium channel activity|sugar:hydrogen symporter activity			ovary(1)	1						GTAGTGTGTCGGGGGGTACGC	0.672													10	58					0	0	0.008291	0	0	
SLC4A11	83959	broad.mit.edu	37	20	3210034	3210034	+	Missense_Mutation	SNP	C	T	T	rs138262189		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:3210034C>T	uc002wig.2	-	14	1903	c.1855G>A	c.(1855-1857)GCC>ACC	p.A619T	SLC4A11_uc010zqe.1_Missense_Mutation_p.A646T|SLC4A11_uc002wih.2_RNA|SLC4A11_uc010zqf.1_Missense_Mutation_p.A603T	NM_032034	NP_114423	Q8NBS3	S4A11_HUMAN	solute carrier family 4 member 11	619	Membrane (bicarbonate transporter).|Cytoplasmic (Potential).				cellular cation homeostasis|fluid transport|phosphoenolpyruvate-dependent sugar phosphotransferase system	basolateral plasma membrane|integral to membrane	bicarbonate transmembrane transporter activity|borate transmembrane transporter activity|hydrogen ion channel activity|inorganic anion exchanger activity|sodium channel activity|sugar:hydrogen symporter activity			ovary(1)	1						AGGGAGAAGGCGAGCACCGCG	0.662													4	42					0	0	0.000602	0	0	
SLC4A11	83959	broad.mit.edu	37	20	3212106	3212106	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:3212106C>T	uc002wig.2	-	7	914	c.866G>A	c.(865-867)CGC>CAC	p.R289H	SLC4A11_uc010zqe.1_Missense_Mutation_p.R316H|SLC4A11_uc002wih.2_RNA|SLC4A11_uc010zqf.1_Missense_Mutation_p.R273H	NM_032034	NP_114423	Q8NBS3	S4A11_HUMAN	solute carrier family 4 member 11	289	Cytoplasmic (Potential).				cellular cation homeostasis|fluid transport|phosphoenolpyruvate-dependent sugar phosphotransferase system	basolateral plasma membrane|integral to membrane	bicarbonate transmembrane transporter activity|borate transmembrane transporter activity|hydrogen ion channel activity|inorganic anion exchanger activity|sodium channel activity|sugar:hydrogen symporter activity			ovary(1)	1						CTCCTCTGTGCGGGTCTCCAG	0.592													6	79					0	0	0.004482	0	0	
SLC4A11	83959	broad.mit.edu	37	20	3214613	3214613	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:3214613C>T	uc002wig.2	-	5	655	c.607G>A	c.(607-609)GCC>ACC	p.A203T	SLC4A11_uc010zqe.1_Missense_Mutation_p.A230T|SLC4A11_uc002wih.2_RNA|SLC4A11_uc010zqf.1_Missense_Mutation_p.A187T	NM_032034	NP_114423	Q8NBS3	S4A11_HUMAN	solute carrier family 4 member 11	203	Cytoplasmic (Potential).				cellular cation homeostasis|fluid transport|phosphoenolpyruvate-dependent sugar phosphotransferase system	basolateral plasma membrane|integral to membrane	bicarbonate transmembrane transporter activity|borate transmembrane transporter activity|hydrogen ion channel activity|inorganic anion exchanger activity|sodium channel activity|sugar:hydrogen symporter activity			ovary(1)	1						GTCACTGTGGCGGTGACCCCT	0.647													8	69					0	0	0.000978	0	0	
ATRN	8455	broad.mit.edu	37	20	3528132	3528132	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:3528132G>A	uc002wim.2	+	5	1029	c.939G>A	c.(937-939)TGG>TGA	p.W313*	ATRN_uc002wil.2_Nonsense_Mutation_p.W313*	NM_139321	NP_647537	O75882	ATRN_HUMAN	attractin isoform 1	313	Extracellular (Potential).				inflammatory response	extracellular space|integral to plasma membrane	receptor activity|sugar binding			ovary(1)|breast(1)	2						TCTCAGACTGGCAGGGTAGGA	0.373													12	68					0	0	0.001368	0	0	
ATRN	8455	broad.mit.edu	37	20	3584894	3584894	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:3584894G>A	uc002wim.2	+	24	3876	c.3786G>A	c.(3784-3786)TGG>TGA	p.W1262*	ATRN_uc002wil.2_Nonsense_Mutation_p.W1262*	NM_139321	NP_647537	O75882	ATRN_HUMAN	attractin isoform 1	1262	Extracellular (Potential).				inflammatory response	extracellular space|integral to plasma membrane	receptor activity|sugar binding			ovary(1)|breast(1)	2						ATTTCACCTGGCCCATCAAAA	0.363													13	61					0	0	0.002450	0	0	
SIGLEC1	6614	broad.mit.edu	37	20	3678463	3678463	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:3678463C>A	uc002wja.2	-	8	2104	c.2104G>T	c.(2104-2106)GCC>TCC	p.A702S	SIGLEC1_uc002wiz.3_Missense_Mutation_p.A702S	NM_023068	NP_075556	Q9BZZ2	SN_HUMAN	sialoadhesin precursor	702	Ig-like C2-type 6.|Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|endocytosis|inflammatory response	extracellular region|integral to membrane|plasma membrane	sugar binding			pancreas(4)|ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	10						TTGAAGGTGGCTGAGGTGGAG	0.612													9	35					2.17888e-05	2.29724e-05	0.006214	1	0	
SIGLEC1	6614	broad.mit.edu	37	20	3683963	3683963	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:3683963G>A	uc002wja.2	-	5	1109	c.1109C>T	c.(1108-1110)GCC>GTC	p.A370V	SIGLEC1_uc002wiz.3_Missense_Mutation_p.A370V|SIGLEC1_uc002wjc.2_Missense_Mutation_p.A281V	NM_023068	NP_075556	Q9BZZ2	SN_HUMAN	sialoadhesin precursor	370	Extracellular (Potential).|Ig-like C2-type 3.				cell-cell adhesion|cell-matrix adhesion|endocytosis|inflammatory response	extracellular region|integral to membrane|plasma membrane	sugar binding			pancreas(4)|ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	10						ATGGGAGTGGGCATCCTCCAG	0.582													4	57					0	0	0.000602	0	0	
MAVS	57506	broad.mit.edu	37	20	3846580	3846580	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:3846580T>C	uc002wjw.3	+	7	1578	c.1409T>C	c.(1408-1410)GTG>GCG	p.V470A	MAVS_uc002wjx.3_Missense_Mutation_p.V329A|MAVS_uc002wjy.3_Missense_Mutation_p.V168A	NM_020746	NP_065797	Q7Z434	MAVS_HUMAN	virus-induced signaling adapter	470	Cytoplasmic (Probable).				activation of innate immune response|cellular response to exogenous dsRNA|defense response to bacterium|innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|positive regulation of chemokine (C-C motif) ligand 5 production|positive regulation of defense response to virus by host|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interleukin-8 production|positive regulation of IP-10 production|positive regulation of protein import into nucleus, translocation|positive regulation of protein phosphorylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|positive regulation of type I interferon-mediated signaling pathway|response to virus	integral to membrane|mitochondrial outer membrane	CARD domain binding|protein kinase binding|signal transducer activity				0						GGGATCCACGTGGCTGAGAAC	0.647													7	41					0	0	0.003080	0	0	
ADRA1D	146	broad.mit.edu	37	20	4202178	4202178	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:4202178C>T	uc002wkr.2	-	2	1766	c.1711G>A	c.(1711-1713)GAT>AAT	p.D571N		NM_000678	NP_000669	P25100	ADA1D_HUMAN	alpha-1D-adrenergic receptor	571	Cytoplasmic (By similarity).			KPPSAFREWRLLGPFRRPTTQLRAKVSSLSHKIRAGGAQRA EAACAQRSEVEAVSLGVPHEVAEGATCQAYELADYSNLRET DI -> SHPAPSASGGCWGRSGDPRPSCAPKSPACRTRSPP GARSAQRQRAPSAQRWRLCP (in Ref. 1).	cell proliferation|cell-cell signaling|DNA metabolic process|G-protein signaling, coupled to cAMP nucleotide second messenger|multicellular organismal development|positive regulation of cell proliferation	integral to plasma membrane	alpha1-adrenergic receptor activity				0					Alfuzosin(DB00346)|Bethanidine(DB00217)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Doxazosin(DB00590)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Methotrimeprazine(DB01403)|Norepinephrine(DB00368)|Promazine(DB00420)|Propericiazine(DB01608)|Propiomazine(DB00777)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)	CCTTAAATATCGGTCTCCCGT	0.637											OREG0025743	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	46					0	0	0.001855	0	0	
PRNP	5621	broad.mit.edu	37	20	4680430	4680430	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:4680430G>A	uc002wku.2	+	2	927	c.564G>A	c.(562-564)ACG>ACA	p.T188T	PRNP_uc002wkv.2_Silent_p.T188T|PRNP_uc002wkw.2_Silent_p.T188T|PRNP_uc002wkx.2_Silent_p.T188T|PRNP_uc002wkt.1_Silent_p.T158T|PRNP_uc002wky.2_Silent_p.T188T|PRNP_uc010gbe.1_Silent_p.T188T	NM_001080122	NP_001073591	P04156	PRIO_HUMAN	prion protein preproprotein	188	Interaction with GRB2, ERI3 and SYN1 (By similarity).		T -> K (in early-onset dementia; dementia associated to prion diseases).|T -> R.		axon guidance|cell cycle arrest|cellular copper ion homeostasis|metabolic process|negative regulation of activated T cell proliferation|negative regulation of calcineurin-NFAT signaling pathway|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-2 production|negative regulation of protein phosphorylation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of T cell receptor signaling pathway|protein homooligomerization|response to oxidative stress	anchored to membrane|endoplasmic reticulum|extrinsic to membrane|Golgi apparatus|membrane raft|nucleus|plasma membrane	copper ion binding|identical protein binding|microtubule binding			central_nervous_system(1)	1					Tetracycline(DB00759)	AGCAGCACACGGTCACCACAA	0.517													19	92					0	0	0.002780	0	0	
PRNT	149830	broad.mit.edu	37	20	4713073	4713073	+	RNA	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:4713073C>T	uc002wlb.2	-	2		c.951G>A			PRNT_uc010zqp.1_RNA|PRNT_uc010zqq.1_RNA	NR_024268				Homo sapiens mRNA for putative M8 protein, isoform 2.												0						ctattgcatgcctggcagtcc	0.179													4	30					0	0	0.009096	0	0	
SLC23A2	9962	broad.mit.edu	37	20	4842713	4842713	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:4842713C>T	uc002wlg.1	-	15	1880	c.1505G>A	c.(1504-1506)GGC>GAC	p.G502D	SLC23A2_uc010zqr.1_Missense_Mutation_p.G387D|SLC23A2_uc002wlh.1_Missense_Mutation_p.G502D	NM_005116	NP_005107	Q9UGH3	S23A2_HUMAN	solute carrier family 23 (nucleobase	502	Helical; (Potential).				L-ascorbic acid metabolic process|molecular hydrogen transport|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|transepithelial L-ascorbic acid transport	apical plasma membrane|integral to plasma membrane|membrane fraction	nucleobase transmembrane transporter activity|sodium-dependent L-ascorbate transmembrane transporter activity|sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2						GTTAGAGAGGCCAACAGCTGT	0.507													19	95					0	0	0.010504	0	0	
HAO1	54363	broad.mit.edu	37	20	7886883	7886883	+	Silent	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:7886883T>G	uc002wmw.1	-	4	663	c.639A>C	c.(637-639)ATA>ATC	p.I213I	HAO1_uc010gbu.2_Silent_p.I213I	NM_017545	NP_060015	Q9UJM8	HAOX1_HUMAN	hydroxyacid oxidase 1	213	FMN hydroxy acid dehydrogenase.				cellular nitrogen compound metabolic process|fatty acid alpha-oxidation|glycolate catabolic process|glyoxylate metabolic process	peroxisomal matrix	FMN binding|glycolate oxidase activity|glyoxylate oxidase activity			ovary(3)	3						TAGATGGGTCTATTGCTTTAG	0.383													5	148					0	0	0.000602	0	0	
PLCB1	23236	broad.mit.edu	37	20	8626776	8626776	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:8626776G>A	uc002wnb.2	+	5	415	c.412G>A	c.(412-414)GCA>ACA	p.A138T	PLCB1_uc010zrb.1_Missense_Mutation_p.A37T|PLCB1_uc010gbv.1_Missense_Mutation_p.A138T|PLCB1_uc002wmz.1_Missense_Mutation_p.A138T|PLCB1_uc002wna.2_Missense_Mutation_p.A138T|PLCB1_uc002wnc.1_Missense_Mutation_p.A37T	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	138					activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12						TTTCAGTTTGGCAACAAACCT	0.398													4	74					0	0	0.000602	0	0	
PLCB1	23236	broad.mit.edu	37	20	8703032	8703032	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:8703032T>C	uc002wnb.2	+	15	1548	c.1545T>C	c.(1543-1545)GAT>GAC	p.D515D	PLCB1_uc010zrb.1_Silent_p.D414D|PLCB1_uc002wna.2_Silent_p.D515D|PLCB1_uc002wnc.1_Silent_p.D414D|PLCB1_uc002wnd.1_Silent_p.D92D	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	515					activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12						ACGACGACGATGATGATGATG	0.423													4	148					0	0	0.000602	0	0	
PLCB4	5332	broad.mit.edu	37	20	9360803	9360803	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:9360803A>G	uc002wnf.2	+	12	983	c.847A>G	c.(847-849)AAA>GAA	p.K283E	PLCB4_uc010gbw.1_Missense_Mutation_p.K283E|PLCB4_uc010gbx.2_Missense_Mutation_p.K283E|PLCB4_uc002wne.2_Missense_Mutation_p.K283E|PLCB4_uc002wnh.2_Missense_Mutation_p.K130E	NM_182797	NP_877949	Q15147	PLCB4_HUMAN	phospholipase C beta 4 isoform b	283					intracellular signal transduction|lipid catabolic process	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			skin(11)|ovary(3)|pancreas(1)	15						AGATTTGAAGAAAAAAGGTAA	0.299													5	65					0	0	0.001168	0	0	
PLCB4	5332	broad.mit.edu	37	20	9404483	9404483	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:9404483G>A	uc002wnf.2	+	26	2508	c.2372G>A	c.(2371-2373)GGC>GAC	p.G791D	PLCB4_uc010gbw.1_Missense_Mutation_p.G791D|PLCB4_uc010gbx.2_Missense_Mutation_p.G803D|PLCB4_uc002wne.2_Missense_Mutation_p.G791D|PLCB4_uc002wnh.2_Missense_Mutation_p.G638D	NM_182797	NP_877949	Q15147	PLCB4_HUMAN	phospholipase C beta 4 isoform b	791					intracellular signal transduction|lipid catabolic process	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			skin(11)|ovary(3)|pancreas(1)	15						CCGCTTGATGGCCTCCAAGCC	0.438													5	53					0	0	0.000602	0	0	
PAK7	57144	broad.mit.edu	37	20	9546783	9546783	+	Silent	SNP	C	T	T	rs140739060	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:9546783C>T	uc002wnl.2	-	6	1784	c.1239G>A	c.(1237-1239)CCG>CCA	p.P413P	PAK7_uc002wnk.2_Silent_p.P413P|PAK7_uc002wnj.2_Silent_p.P413P|PAK7_uc010gby.1_Silent_p.P413P	NM_020341	NP_065074	Q9P286	PAK7_HUMAN	p21-activated kinase 7	413	Linker.						ATP binding|protein binding|protein serine/threonine kinase activity	p.P413L(1)		lung(11)|skin(5)|central_nervous_system(3)|ovary(2)|large_intestine(1)|stomach(1)	23			COAD - Colon adenocarcinoma(9;0.194)			CCCAGCTGGGCGGCGGGTAGG	0.657													12	45					0	0	0.002450	0	0	
ANKRD5	63926	broad.mit.edu	37	20	10036276	10036276	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:10036276G>A	uc002wno.2	+	11	2692	c.2299G>A	c.(2299-2301)GCT>ACT	p.A767T	uc002wnn.1_Intron|ANKRD5_uc002wnp.2_Missense_Mutation_p.A767T|ANKRD5_uc010gbz.2_Missense_Mutation_p.A578T	NM_022096	NP_071379	Q9NU02	ANKR5_HUMAN	ankyrin repeat domain protein 5	767							calcium ion binding			ovary(1)|breast(1)	2						CACAGAGAAAGCTCGAGCACT	0.458													22	124					0	0	0.002780	0	0	
MKKS	8195	broad.mit.edu	37	20	10393700	10393700	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:10393700G>A	uc002wnt.1	-	3	1350	c.463C>T	c.(463-465)CGT>TGT	p.R155C	MKKS_uc002wnu.1_Missense_Mutation_p.R155C|MKKS_uc010zrd.1_Intron	NM_018848	NP_061336	Q9NPJ1	MKKS_HUMAN	McKusick-Kaufman syndrome protein	155			R -> L (in BBS6; increases MKKS protein degradation only; localizes properly to the centrosome).		brain morphogenesis|cerebral cortex development|convergent extension involved in gastrulation|detection of mechanical stimulus involved in sensory perception of sound|fat cell differentiation|flagellum assembly|gonad development|heart looping|hippocampus development|intracellular transport|melanosome transport|photoreceptor cell maintenance|pigment granule aggregation in cell center|protein folding|regulation of cilium beat frequency involved in ciliary motility|sensory perception of smell|social behavior|spermatid development|striatum development	cytosol|microtubule organizing center|motile cilium	ATP binding|unfolded protein binding				0						AATATACTACGCACCAAACAA	0.423									Bardet-Biedl_syndrome				18	106					0	0	0.007413	0	0	
C20orf94	128710	broad.mit.edu	37	20	10603861	10603861	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:10603861C>T	uc010zre.1	+	8	1241	c.1061C>T	c.(1060-1062)ACG>ATG	p.T354M		NM_001009608	NP_001009608	Q5VYV7	CT094_HUMAN	hypothetical protein LOC128710	354							protein binding				0						GCAAAAACCACGTCTAAGGAA	0.428													24	115					0	0	0.003330	0	0	
JAG1	182	broad.mit.edu	37	20	10620233	10620233	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:10620233C>T	uc002wnw.2	-	26	4086	c.3570G>A	c.(3568-3570)CCG>CCA	p.P1190P		NM_000214	NP_000205	P78504	JAG1_HUMAN	jagged 1 precursor	1190	Cytoplasmic (Potential).				angiogenesis|cell communication|cell fate determination|endothelial cell differentiation|hemopoiesis|keratinocyte differentiation|myoblast differentiation|Notch receptor processing|Notch signaling pathway|regulation of cell migration|regulation of cell proliferation	extracellular region|integral to plasma membrane	calcium ion binding|growth factor activity|Notch binding|structural molecule activity			lung(3)|ovary(2)|central_nervous_system(2)|breast(1)|pancreas(1)	9						GGTGTTTTGTCGGCGTGCCGT	0.542									Alagille_Syndrome				17	199					0	0	0.006122	0	0	
TASP1	55617	broad.mit.edu	37	20	13604122	13604122	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:13604122C>T	uc002woi.2	-	4	370	c.253G>A	c.(253-255)GCA>ACA	p.A85T	TASP1_uc010zri.1_RNA|TASP1_uc002woh.2_Intron|TASP1_uc010zrj.1_RNA|TASP1_uc010zrk.1_Missense_Mutation_p.A85T	NM_017714	NP_060184	Q9H6P5	TASP1_HUMAN	taspase 1 precursor	85					asparagine catabolic process via L-aspartate|positive regulation of transcription, DNA-dependent|protein maturation		threonine-type endopeptidase activity				0						GCAGTGACTGCGTCAGTTGCA	0.363													10	31					0	0	0.007413	0	0	
ESF1	51575	broad.mit.edu	37	20	13763615	13763615	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:13763615G>A	uc002woj.2	-	2	280	c.172C>T	c.(172-174)CGC>TGC	p.R58C	ESF1_uc002wok.1_Missense_Mutation_p.R58C|C20orf7_uc002wol.1_5'Flank|C20orf7_uc002wom.2_5'Flank|C20orf7_uc002won.2_5'Flank|C20orf7_uc002woo.2_5'Flank	NM_016649	NP_057733	Q9H501	ESF1_HUMAN	ABT1-associated protein	58					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|nucleoplasm				ovary(1)	1						CTAATGGGGCGCCCTCTTTTA	0.413													51	73					0	0	0.003610	0	0	
SEL1L2	80343	broad.mit.edu	37	20	13839962	13839962	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:13839962C>T	uc010gcf.2	-	18	1846	c.1764G>A	c.(1762-1764)GCG>GCA	p.A588A	SEL1L2_uc002woq.3_Silent_p.A449A|SEL1L2_uc010zrl.1_Intron|SEL1L2_uc002wor.2_RNA	NM_025229	NP_079505	Q5TEA6	SE1L2_HUMAN	sel-1 suppressor of lin-12-like 2 precursor	588	Extracellular (Potential).|Sel1-like 11.					integral to membrane	binding			ovary(2)	2						ACATGGCTTGCGCGTTGTGGT	0.403													10	31					0	0	0.000978	0	0	
MACROD2	140733	broad.mit.edu	37	20	14665514	14665514	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:14665514C>T	uc002wou.2	+	5	591	c.327C>T	c.(325-327)GCC>GCT	p.A109A	MACROD2_uc002wot.2_Silent_p.A109A|MACROD2_uc002wox.2_RNA	NM_080676	NP_542407	A1Z1Q3	MACD2_HUMAN	MACRO domain containing 2 isoform 1	109	Macro.										0		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)				ATAGAGCAGCCGGCCCCTGTT	0.418													24	87					0	0	0.003954	0	0	
MACROD2	140733	broad.mit.edu	37	20	16030511	16030511	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:16030511G>A	uc002wou.2	+	18	1601	c.1337G>A	c.(1336-1338)GGA>GAA	p.G446E	MACROD2_uc002wot.2_Missense_Mutation_p.G423E|MACROD2_uc002woz.2_Missense_Mutation_p.G211E|MACROD2_uc002wpb.2_Missense_Mutation_p.G188E|MACROD2_uc002wpd.2_Missense_Mutation_p.G96E	NM_080676	NP_542407	A1Z1Q3	MACD2_HUMAN	MACRO domain containing 2 isoform 1	446											0		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)				CAAAGAAATGGAACTAAATGA	0.512													6	79					0	0	0.001984	0	0	
KIF16B	55614	broad.mit.edu	37	20	16360543	16360543	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:16360543A>G	uc002wpg.1	-	19	2262	c.2104T>C	c.(2104-2106)TTT>CTT	p.F702L	KIF16B_uc002wpe.1_Missense_Mutation_p.F84L|KIF16B_uc002wpf.1_Missense_Mutation_p.F84L|KIF16B_uc010gch.1_Missense_Mutation_p.F702L|KIF16B_uc010gci.1_Missense_Mutation_p.F702L|KIF16B_uc010gcj.1_Missense_Mutation_p.F713L	NM_024704	NP_078980	Q96L93	KI16B_HUMAN	kinesin-like motor protein C20orf23	702	Glu-rich.|Potential.				cell communication|early endosome to late endosome transport|endoderm development|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|formation of primary germ layer|Golgi to endosome transport|microtubule-based movement|receptor catabolic process|regulation of receptor recycling	early endosome membrane|microtubule	ATP binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|plus-end-directed microtubule motor activity			skin(2)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|ovary(1)|kidney(1)	8						ACGCGGAGAAAGGTCTCTTCT	0.448													5	179					0	0	0.000602	0	0	
CSRP2BP	57325	broad.mit.edu	37	20	18163860	18163860	+	Silent	SNP	C	T	T	rs149106213		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:18163860C>T	uc002wqj.2	+	9	2524	c.1902C>T	c.(1900-1902)CCC>CCT	p.P634P	CSRP2BP_uc002wqk.2_Silent_p.P506P|CSRP2BP_uc010zru.1_Silent_p.P505P	NM_020536	NP_065397	Q9H8E8	CSR2B_HUMAN	CSRP2 binding protein	634					histone H3 acetylation	Ada2/Gcn5/Ada3 transcription activator complex|cytoplasm	LIM domain binding|N-acetyltransferase activity			lung(3)|ovary(2)|skin(1)	6						CGCCGGAGCCCGACGCACCTC	0.547													18	106					0	0	0.008871	0	0	
ZNF133	7692	broad.mit.edu	37	20	18296267	18296267	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:18296267G>A	uc010gcq.2	+	5	1077	c.772G>A	c.(772-774)GCC>ACC	p.A258T	ZNF133_uc010zrv.1_Missense_Mutation_p.A261T|ZNF133_uc010zrw.1_Missense_Mutation_p.A195T|ZNF133_uc010gcr.2_Missense_Mutation_p.A258T|ZNF133_uc010zrx.1_Missense_Mutation_p.A163T|ZNF133_uc002wql.3_Missense_Mutation_p.A257T|ZNF133_uc010gcs.2_Missense_Mutation_p.A257T|ZNF133_uc010zry.1_Missense_Mutation_p.A163T|ZNF133_uc002wqm.2_Missense_Mutation_p.A258T	NM_003434	NP_003425	P52736	ZN133_HUMAN	zinc finger protein 133	258	C2H2-type 2.					nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|pancreas(1)	2						GAAGAGCCTCGCCAGACACCA	0.547													8	58					0	0	0.004482	0	0	
ZNF133	7692	broad.mit.edu	37	20	18296956	18296956	+	Silent	SNP	G	A	A	rs139392054	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:18296956G>A	uc010gcq.2	+	5	1766	c.1461G>A	c.(1459-1461)ACG>ACA	p.T487T	ZNF133_uc010zrv.1_Silent_p.T490T|ZNF133_uc010zrw.1_Silent_p.T424T|ZNF133_uc010gcr.2_Silent_p.T487T|ZNF133_uc010zrx.1_Silent_p.T392T|ZNF133_uc002wql.3_Silent_p.T486T|ZNF133_uc010gcs.2_Silent_p.T486T|ZNF133_uc010zry.1_Silent_p.T392T|ZNF133_uc002wqm.2_Silent_p.T487T	NM_003434	NP_003425	P52736	ZN133_HUMAN	zinc finger protein 133	487	C2H2-type 10.					nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|pancreas(1)	2						ACCAGAGGACGCACTCAGGCG	0.587													7	52					0	0	0.003080	0	0	
SEC23B	10483	broad.mit.edu	37	20	18535003	18535003	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:18535003G>A	uc002wqz.1	+	18	2560	c.2117G>A	c.(2116-2118)CGT>CAT	p.R706H	SEC23B_uc002wra.1_Missense_Mutation_p.R706H|SEC23B_uc002wrb.1_Missense_Mutation_p.R706H|SEC23B_uc010zsb.1_Missense_Mutation_p.R688H|SEC23B_uc002wrc.1_Missense_Mutation_p.R706H	NM_006363	NP_006354	Q15437	SC23B_HUMAN	Sec23 homolog B	706					ER to Golgi vesicle-mediated transport|intracellular protein transport	COPII vesicle coat|endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane	zinc ion binding			ovary(1)	1						CCGATGCCACGTTACATCAAC	0.473													36	135					0	0	0.002522	0	0	
SLC24A3	57419	broad.mit.edu	37	20	19674014	19674014	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:19674014C>T	uc002wrl.2	+	13	1633	c.1436C>T	c.(1435-1437)ACG>ATG	p.T479M		NM_020689	NP_065740	Q9HC58	NCKX3_HUMAN	solute carrier family 24	479	Cytoplasmic (Potential).					integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			ovary(1)	1						TTCATGGTGACGTTTGCTTCC	0.517													17	73					0	0	0.007413	0	0	
C20orf26	26074	broad.mit.edu	37	20	20269550	20269550	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:20269550A>G	uc002wru.2	+	23	3170	c.3094A>G	c.(3094-3096)ATC>GTC	p.I1032V	C20orf26_uc002wrw.2_Intron	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	1032										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		TGACCGGCTCATCCCCATGTA	0.507													3	32					0	0	0.009096	0	0	
RALGAPA2	57186	broad.mit.edu	37	20	20493786	20493786	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:20493786G>A	uc002wrz.2	-	32	4370	c.4227C>T	c.(4225-4227)GCC>GCT	p.A1409A	RALGAPA2_uc010gcx.2_Silent_p.A1113A|RALGAPA2_uc010zsg.1_Silent_p.A857A|RALGAPA2_uc002wsa.1_Silent_p.A181A	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	1409					activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						CTTCCACATGGGCATTGTCAT	0.547													8	50					0	0	0.001368	0	0	
RALGAPA2	57186	broad.mit.edu	37	20	20552181	20552181	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:20552181C>T	uc002wrz.2	-	23	3220	c.3077G>A	c.(3076-3078)CGC>CAC	p.R1026H	RALGAPA2_uc010gcx.2_Missense_Mutation_p.R730H|RALGAPA2_uc010zsg.1_Missense_Mutation_p.R474H	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	1026					activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						AACGTCCTGGCGTCTGGTCAT	0.483													8	44					0	0	0.003080	0	0	
RALGAPA2	57186	broad.mit.edu	37	20	20571843	20571843	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:20571843C>T	uc002wrz.2	-	17	2462	c.2319G>A	c.(2317-2319)CCG>CCA	p.P773P	RALGAPA2_uc010gcx.2_Silent_p.P477P|RALGAPA2_uc010zsg.1_Silent_p.P221P	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	773					activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						CTGAGCACAGCGGCTCGGGGA	0.498													12	63					0	0	0.004990	0	0	
XRN2	22803	broad.mit.edu	37	20	21309294	21309294	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:21309294A>G	uc002wsf.1	+	4	508	c.413A>G	c.(412-414)GAA>GGA	p.E138G	XRN2_uc002wsg.1_Missense_Mutation_p.E62G|XRN2_uc010zsk.1_Missense_Mutation_p.E84G	NM_012255	NP_036387	Q9H0D6	XRN2_HUMAN	5'-3' exoribonuclease 2	138					cell growth|DNA catabolic process, exonucleolytic|mRNA processing|regulation of transcription, DNA-dependent|RNA catabolic process|spermatogenesis|transcription termination, DNA-dependent	nucleolus	5'-3' exoribonuclease activity|nucleic acid binding|protein binding|zinc ion binding			skin(1)	1						GTCAGGGAAGAAATATTGGCA	0.443													8	53					0	0	0.004482	0	0	
XRN2	22803	broad.mit.edu	37	20	21311291	21311291	+	Missense_Mutation	SNP	G	A	A	rs6137317		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:21311291G>A	uc002wsf.1	+	6	619	c.524G>A	c.(523-525)CGC>CAC	p.R175H	XRN2_uc002wsg.1_Missense_Mutation_p.R99H|XRN2_uc010zsk.1_Missense_Mutation_p.R121H	NM_012255	NP_036387	Q9H0D6	XRN2_HUMAN	5'-3' exoribonuclease 2	175					cell growth|DNA catabolic process, exonucleolytic|mRNA processing|regulation of transcription, DNA-dependent|RNA catabolic process|spermatogenesis|transcription termination, DNA-dependent	nucleolus	5'-3' exoribonuclease activity|nucleic acid binding|protein binding|zinc ion binding			skin(1)	1						AAATGCCTTCGCTATTACATA	0.328													5	76					0	0	0.001984	0	0	
FOXA2	3170	broad.mit.edu	37	20	22563405	22563405	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:22563405G>A	uc002wsn.2	-	3	647	c.457C>T	c.(457-459)CGC>TGC	p.R153C	FOXA2_uc002wsm.2_Missense_Mutation_p.R159C	NM_153675	NP_710141	Q9Y261	FOXA2_HUMAN	forkhead box A2 isoform 2	153					cell differentiation in hindbrain|central nervous system myelin formation|chromatin modification|dorsal/ventral neural tube patterning|ectoderm formation|endocrine pancreas development|endoderm development|epithelial tube branching involved in lung morphogenesis|in utero embryonic development|lung epithelial cell differentiation|negative regulation of neuron differentiation|neuron fate specification|oligodendrocyte cell fate commitment|positive regulation of embryonic development|positive regulation of gastrulation|positive regulation of neuron differentiation|primitive streak formation|regulation of blood coagulation|regulation of sequence-specific DNA binding transcription factor activity|response to interleukin-6	cytoplasm|transcription factor complex	DNA bending activity|double-stranded DNA binding|protein domain specific binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(2)|kidney(1)|central_nervous_system(1)	4	Lung NSC(19;0.188)					GTGTAGCTGCGCCTGTAGGTC	0.647													5	59					0	0	0.000602	0	0	
SSTR4	6754	broad.mit.edu	37	20	23016316	23016316	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:23016316G>A	uc002wsr.2	+	1	260	c.196G>A	c.(196-198)GCC>ACC	p.A66T		NM_001052	NP_001043	P31391	SSR4_HUMAN	somatostatin receptor 4	66	Helical; Name=1; (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cell proliferation	integral to plasma membrane	somatostatin receptor activity			ovary(1)	1	Colorectal(13;0.0518)|Lung NSC(19;0.0542)|all_lung(19;0.118)					GGTGGGCAACGCCCTGGTCAT	0.507													17	49					0	0	0.004990	0	0	
CD93	22918	broad.mit.edu	37	20	23065010	23065010	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:23065010C>T	uc002wsv.2	-	1	1968	c.1820G>A	c.(1819-1821)CGC>CAC	p.R607H		NM_012072	NP_036204	Q9NPY3	C1QR1_HUMAN	CD93 antigen precursor	607	Cytoplasmic (Potential).				cell-cell adhesion|interspecies interaction between organisms|macrophage activation|phagocytosis	plasma membrane	calcium ion binding|complement component C1q binding|receptor activity|sugar binding			large_intestine(2)	2	Colorectal(13;0.0352)|Lung NSC(19;0.0542)|all_lung(19;0.118)					TCTCCGCTTGCGATAGACCAG	0.582													18	114					0	0	0.007413	0	0	
GZF1	64412	broad.mit.edu	37	20	23345592	23345592	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:23345592G>A	uc010gdb.2	+	3	746	c.572G>A	c.(571-573)GGC>GAC	p.G191D	GZF1_uc002wsy.2_Missense_Mutation_p.G191D|GZF1_uc010zsq.1_Intron|GZF1_uc010zsr.1_Intron|GZF1_uc002wsz.2_Missense_Mutation_p.G191D	NM_022482	NP_071927	Q9H116	GZF1_HUMAN	GDNF-inducible zinc finger protein 1	191					transcription, DNA-dependent	nucleolus|nucleoplasm	sequence-specific DNA binding|zinc ion binding			kidney(1)	1	Lung NSC(19;0.0605)|Colorectal(13;0.0993)|all_lung(19;0.135)					GCCAGCAATGGCATGTCTTCA	0.537													15	85					0	0	0.004007	0	0	
GZF1	64412	broad.mit.edu	37	20	23346300	23346300	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:23346300G>A	uc010gdb.2	+	3	1454	c.1280G>A	c.(1279-1281)CGC>CAC	p.R427H	GZF1_uc002wsy.2_Missense_Mutation_p.R427H|GZF1_uc010zsq.1_Intron|GZF1_uc010zsr.1_Intron|GZF1_uc002wsz.2_Missense_Mutation_p.R427H	NM_022482	NP_071927	Q9H116	GZF1_HUMAN	GDNF-inducible zinc finger protein 1	427	C2H2-type 4.				transcription, DNA-dependent	nucleolus|nucleoplasm	sequence-specific DNA binding|zinc ion binding			kidney(1)	1	Lung NSC(19;0.0605)|Colorectal(13;0.0993)|all_lung(19;0.135)					CTGCACGAGCGCACACACACG	0.716													4	21					0	0	0.000602	0	0	
CST11	140880	broad.mit.edu	37	20	23432462	23432462	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:23432462C>T	uc002wtf.1	-	2	358	c.324G>A	c.(322-324)GAG>GAA	p.E108E	CST11_uc002wtg.1_Intron	NM_130794	NP_570612	Q9H112	CST11_HUMAN	cystatin 11 isoform 1 precursor	108					defense response to bacterium	cytoplasm|nucleus	cysteine-type endopeptidase inhibitor activity				0	Colorectal(13;0.0431)|Lung NSC(19;0.235)					CCTTGTGAAGCTCCCTTTCCT	0.468													13	48					0	0	0.003163	0	0	
TMEM90B	79953	broad.mit.edu	37	20	24646036	24646036	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:24646036C>T	uc002wtw.1	+	4	1306	c.673C>T	c.(673-675)CGG>TGG	p.R225W		NM_024893	NP_079169	Q9H7V2	SYNG1_HUMAN	transmembrane protein 90B	225	Extracellular (Potential).				response to biotic stimulus	early endosome membrane|integral to membrane|plasma membrane					0						CAGCTCCCGGCGGGCCCTATT	0.587													8	89					0	0	0.006214	0	0	
ENTPD6	955	broad.mit.edu	37	20	25187856	25187856	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:25187856G>A	uc002wuj.2	+	3	379	c.199G>A	c.(199-201)GCC>ACC	p.A67T	ENTPD6_uc010zsy.1_Missense_Mutation_p.A67T|ENTPD6_uc010gdj.1_Missense_Mutation_p.A39T|ENTPD6_uc010zsz.1_Intron|ENTPD6_uc002wum.2_Missense_Mutation_p.A50T|ENTPD6_uc010zta.1_Missense_Mutation_p.A67T|ENTPD6_uc002wun.2_Missense_Mutation_p.A67T|ENTPD6_uc002wuk.2_Missense_Mutation_p.A66T|ENTPD6_uc002wul.2_Missense_Mutation_p.A66T|ENTPD6_uc010ztb.1_Missense_Mutation_p.A39T|ENTPD6_uc010ztc.1_Missense_Mutation_p.A39T|ENTPD6_uc002wuo.2_Intron|ENTPD6_uc010ztd.1_5'Flank	NM_001247	NP_001238	O75354	ENTP6_HUMAN	ectonucleoside triphosphate diphosphohydrolase 6	67	Lumenal (Potential).					Golgi membrane|integral to membrane	nucleoside-diphosphatase activity				0						CCGGGCCACCGCCACCCAGGC	0.687													8	25					0	0	0.004482	0	0	
PYGB	5834	broad.mit.edu	37	20	25273229	25273229	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:25273229C>T	uc002wup.2	+	17	2266	c.2157C>T	c.(2155-2157)GTC>GTT	p.V719V		NM_002862	NP_002853	P11216	PYGB_HUMAN	brain glycogen phosphorylase	719					glucose metabolic process|glycogen catabolic process	cytoplasm	glycogen phosphorylase activity|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					Pyridoxal Phosphate(DB00114)	TGGAGGATGTCGAGGCCTTGG	0.667													5	16					0	0	0.001984	0	0	
ZNF337	26152	broad.mit.edu	37	20	25657197	25657197	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:25657197G>A	uc002wva.2	-	4	1249	c.727C>T	c.(727-729)CGA>TGA	p.R243*	uc002wuz.2_RNA|ZNF337_uc010ztg.1_Nonsense_Mutation_p.R211*|ZNF337_uc002wvb.2_Nonsense_Mutation_p.R243*|ZNF337_uc002wvc.2_Nonsense_Mutation_p.R243*	NM_015655	NP_056470	Q9Y3M9	ZN337_HUMAN	zinc finger protein 337	243	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CTGAAGCCTCGCCCACACACA	0.532													29	90					0	0	0.007291	0	0	
HM13	81502	broad.mit.edu	37	20	30147438	30147438	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:30147438G>A	uc002wwe.2	+	9	947	c.833G>A	c.(832-834)CGC>CAC	p.R278H	HM13_uc002wwc.2_Missense_Mutation_p.R278H|HM13_uc002wwd.2_Missense_Mutation_p.R278H|HM13_uc002wwf.2_Missense_Mutation_p.R154H|HM13_uc010gdu.2_Missense_Mutation_p.R154H	NM_030789	NP_110416	Q8TCT9	HM13_HUMAN	minor histocompatibility antigen 13 isoform 1	278	Cytoplasmic (Potential).				membrane protein proteolysis	cell surface|endoplasmic reticulum membrane|integral to membrane|plasma membrane	aspartic-type endopeptidase activity|protein binding			breast(1)	1	all_cancers(5;3.44e-05)|Lung NSC(7;4.38e-06)|all_lung(7;7.65e-06)|all_hematologic(12;0.158)|Ovarian(7;0.198)		all cancers(5;0.000479)|Colorectal(19;0.00202)|COAD - Colon adenocarcinoma(19;0.0264)			TTGCTGCTGCGCTTTGACATC	0.582											OREG0025850	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	87	447					0	0	0.003610	0	0	
TM9SF4	9777	broad.mit.edu	37	20	30745754	30745754	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:30745754A>G	uc002wxj.2	+	14	1722	c.1487A>G	c.(1486-1488)TAC>TGC	p.Y496C	TM9SF4_uc010zts.1_Missense_Mutation_p.Y403C|TM9SF4_uc002wxk.2_Missense_Mutation_p.Y479C|TM9SF4_uc010gdz.2_Missense_Mutation_p.Y375C	NM_014742	NP_055557	Q92544	TM9S4_HUMAN	transmembrane 9 superfamily protein member 4	496						integral to membrane				central_nervous_system(1)|pancreas(1)	2			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			CAGCGGTGGTACATGAACCGA	0.607													9	74					0	0	0.008291	0	0	
POFUT1	23509	broad.mit.edu	37	20	30803242	30803242	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:30803242G>A	uc002wxp.2	+	3	466	c.417G>A	c.(415-417)ACG>ACA	p.T139T	POFUT1_uc002wxo.2_Silent_p.T139T|POFUT1_uc010ztt.1_Silent_p.T31T|POFUT1_uc010ztu.1_Intron	NM_015352	NP_056167	Q9H488	OFUT1_HUMAN	protein O-fucosyltransferase 1 isoform 1	139					fucose metabolic process|Notch signaling pathway|O-glycan processing|regulation of transcription, DNA-dependent	endoplasmic reticulum|membrane	peptide-O-fucosyltransferase activity			breast(1)	1			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			ATAAGAAGACGTGCCCCATGA	0.557													14	72					0	0	0.004990	0	0	
C20orf112	140688	broad.mit.edu	37	20	31041289	31041289	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:31041289G>A	uc002wxu.3	-	5	740	c.583C>T	c.(583-585)CGT>TGT	p.R195C	C20orf112_uc010gec.2_Missense_Mutation_p.R20C	NM_080616	NP_542183	Q96MY1	CT112_HUMAN	hypothetical protein LOC140688	195											0						ACAAAGAGACGCACAAACATC	0.627													13	59					0	0	0.001855	0	0	
C20orf112	140688	broad.mit.edu	37	20	31044021	31044021	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:31044021G>A	uc002wxu.3	-	3	444	c.287C>T	c.(286-288)CCG>CTG	p.P96L	C20orf112_uc010gec.2_5'UTR	NM_080616	NP_542183	Q96MY1	CT112_HUMAN	hypothetical protein LOC140688	96											0						CGTGGCCGGCGGGAGCTTGTC	0.682													5	18					0	0	0.001984	0	0	
DNMT3B	1789	broad.mit.edu	37	20	31383281	31383281	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:31383281G>A	uc002wyc.2	+	11	1514	c.1193G>A	c.(1192-1194)CGC>CAC	p.R398H	DNMT3B_uc010ztx.1_RNA|DNMT3B_uc010zty.1_RNA|DNMT3B_uc002wyd.2_Missense_Mutation_p.R378H|DNMT3B_uc002wye.2_Missense_Mutation_p.R378H|DNMT3B_uc010gee.2_RNA|DNMT3B_uc010gef.2_RNA|DNMT3B_uc010ztz.1_Missense_Mutation_p.R336H|DNMT3B_uc010zua.1_Missense_Mutation_p.R302H|DNMT3B_uc002wyf.2_Missense_Mutation_p.R390H|DNMT3B_uc002wyg.2_Missense_Mutation_p.R97H	NM_006892	NP_008823	Q9UBC3	DNM3B_HUMAN	DNA cytosine-5 methyltransferase 3 beta isoform	398					negative regulation of histone H3-K9 methylation|positive regulation of gene expression|positive regulation of histone H3-K4 methylation		metal ion binding|protein binding|transcription corepressor activity			lung(3)|ovary(2)	5						GCACCCAAGCGCCTCAAGACA	0.537													8	73					0	0	0.000978	0	0	
DNMT3B	1789	broad.mit.edu	37	20	31386409	31386409	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:31386409G>A	uc002wyc.2	+	15	1955	c.1634G>A	c.(1633-1635)CGC>CAC	p.R545H	DNMT3B_uc010ztx.1_RNA|DNMT3B_uc010zty.1_RNA|DNMT3B_uc002wyd.2_Missense_Mutation_p.R525H|DNMT3B_uc002wye.2_Missense_Mutation_p.R525H|DNMT3B_uc010gee.2_RNA|DNMT3B_uc010gef.2_RNA|DNMT3B_uc010ztz.1_Missense_Mutation_p.R483H|DNMT3B_uc010zua.1_Missense_Mutation_p.R449H|DNMT3B_uc002wyf.2_Missense_Mutation_p.R537H|DNMT3B_uc002wyg.2_Missense_Mutation_p.R244H|DNMT3B_uc010geg.2_5'Flank|DNMT3B_uc010geh.2_5'Flank	NM_006892	NP_008823	Q9UBC3	DNM3B_HUMAN	DNA cytosine-5 methyltransferase 3 beta isoform	545	ADD.				negative regulation of histone H3-K9 methylation|positive regulation of gene expression|positive regulation of histone H3-K4 methylation		metal ion binding|protein binding|transcription corepressor activity			lung(3)|ovary(2)	5						TGGAACGTGCGCCTGCAGGCC	0.627													4	32					0	0	0.009096	0	0	
DNMT3B	1789	broad.mit.edu	37	20	31388002	31388002	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:31388002C>T	uc002wyc.2	+	17	2124	c.1803C>T	c.(1801-1803)TAC>TAT	p.Y601Y	DNMT3B_uc010zty.1_RNA|DNMT3B_uc002wyd.2_Silent_p.Y581Y|DNMT3B_uc002wye.2_Silent_p.Y581Y|DNMT3B_uc010gee.2_RNA|DNMT3B_uc010gef.2_RNA|DNMT3B_uc010ztz.1_Silent_p.Y539Y|DNMT3B_uc010zua.1_Silent_p.Y505Y|DNMT3B_uc002wyf.2_Silent_p.Y593Y|DNMT3B_uc002wyg.2_Silent_p.Y300Y|DNMT3B_uc010geg.2_5'Flank|DNMT3B_uc010geh.2_5'Flank	NM_006892	NP_008823	Q9UBC3	DNM3B_HUMAN	DNA cytosine-5 methyltransferase 3 beta isoform	601					negative regulation of histone H3-K9 methylation|positive regulation of gene expression|positive regulation of histone H3-K4 methylation		metal ion binding|protein binding|transcription corepressor activity			lung(3)|ovary(2)	5						TAGGAAAGTACGTCGCTTCTG	0.483													7	199					0	0	0.001984	0	0	
C20orf185	359710	broad.mit.edu	37	20	31657706	31657706	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:31657706C>T	uc002wym.1	+	11	1162	c.1162C>T	c.(1162-1164)CGT>TGT	p.R388C		NM_182658	NP_872599	P59826	LPLC3_HUMAN	antimicrobial peptide RYA3 precursor	388					innate immune response	cytoplasm|extracellular region	lipid binding|protein binding			ovary(4)	4						CATGACTGTGCGTGCCCAGCT	0.537													50	242					0	0	0.003610	0	0	
C20orf114	92747	broad.mit.edu	37	20	31890858	31890858	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:31890858G>A	uc002wyw.1	+	11	1279	c.1118G>A	c.(1117-1119)CGC>CAC	p.R373H	C20orf114_uc002wyx.1_RNA	NM_033197	NP_149974	Q8TDL5	LPLC1_HUMAN	LPLUNC1 protein precursor	373						extracellular space	lipid binding			central_nervous_system(2)|skin(2)	4						GAAGCCCTCCGCCCTTTGTTC	0.532													12	112					0	0	0.002450	0	0	
CDK5RAP1	51654	broad.mit.edu	37	20	31954730	31954730	+	Silent	SNP	G	T	T	rs148992921		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:31954730G>T	uc010gek.2	-	13	1643	c.1519C>A	c.(1519-1521)CGA>AGA	p.R507R	CDK5RAP1_uc002wyy.2_Silent_p.R403R|CDK5RAP1_uc002wyz.2_Silent_p.R493R|CDK5RAP1_uc002wza.2_Silent_p.R492R|CDK5RAP1_uc010gel.2_Silent_p.R402R|CDK5RAP1_uc010gem.2_Silent_p.R416R|CDK5RAP1_uc002wzc.1_Silent_p.R493R|CDK5RAP1_uc002wzb.1_Silent_p.R128R	NM_016408	NP_057492	Q96SZ6	CK5P1_HUMAN	CDK5 regulatory subunit associated protein 1	507	CDK5R1-binding.				brain development|negative regulation of cyclin-dependent protein kinase activity|regulation of neuron differentiation|tRNA modification	cytoplasm	4 iron, 4 sulfur cluster binding|metal ion binding|neuronal Cdc2-like kinase binding|transferase activity			ovary(2)|skin(2)|lung(1)	5						GCTTCTTCTCGGAAGATAGTG	0.433													36	156					4.65686e-17	5.08544e-17	0.003755	1	0	
CBFA2T2	9139	broad.mit.edu	37	20	32199012	32199012	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:32199012A>G	uc002wzg.1	+	4	855	c.318A>G	c.(316-318)CAA>CAG	p.Q106Q	CBFA2T2_uc010zug.1_Intron|CBFA2T2_uc002wze.1_Silent_p.Q97Q|CBFA2T2_uc002wzf.1_RNA|CBFA2T2_uc002wzh.1_Silent_p.Q77Q|CBFA2T2_uc002wzi.1_RNA|CBFA2T2_uc002wzj.1_RNA	NM_005093	NP_005084	O43439	MTG8R_HUMAN	core-binding factor, runt domain, alpha subunit	106						nucleus	protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			pancreas(1)|skin(1)	2						CAAATCAGCAATTGCCAGCCA	0.512													11	157					0	0	0.002450	0	0	
RALY	22913	broad.mit.edu	37	20	32661432	32661432	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:32661432C>T	uc002xab.2	+	4	618	c.320C>T	c.(319-321)GCC>GTC	p.A107V	RALY_uc010zui.1_Missense_Mutation_p.A107V|RALY_uc002xac.2_Missense_Mutation_p.A107V|RALY_uc002xad.2_RNA|RALY_uc002xae.1_Missense_Mutation_p.A107V	NM_016732	NP_057951	Q9UKM9	RALY_HUMAN	RNA binding protein (autoantigenic,	107						catalytic step 2 spliceosome|heterogeneous nuclear ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(1)	1						GCAGCATCTGCCATATACAGG	0.517													10	54					0	0	0.001368	0	0	
EIF2S2	8894	broad.mit.edu	37	20	32677651	32677651	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:32677651C>T	uc002xaf.2	-	9	1056	c.887G>A	c.(886-888)CGA>CAA	p.R296Q	EIF2S2_uc002xag.2_Missense_Mutation_p.R293Q|EIF2S2_uc010ges.2_Missense_Mutation_p.R236Q	NM_003908	NP_003899	P20042	IF2B_HUMAN	eukaryotic translation initiation factor 2 beta	296	C4-type (Potential).					cytosol|eukaryotic translation initiation factor 2 complex	metal ion binding|protein binding|translation initiation factor activity			large_intestine(1)	1						GAAATAGAGTCGTGTGTCCTT	0.493													7	154					0	0	0.001984	0	0	
MAP1LC3A	84557	broad.mit.edu	37	20	33147564	33147564	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:33147564G>A	uc002xaq.1	+	4	382	c.228G>A	c.(226-228)ACG>ACA	p.T76T	MAP1LC3A_uc002xap.1_Silent_p.T80T	NM_032514	NP_115903	Q9H492	MLP3A_HUMAN	microtubule-associated protein 1 light chain 3	76					autophagic vacuole assembly	autophagic vacuole membrane|cytoplasmic vesicle|cytosol|endomembrane system|microtubule	phosphatidylethanolamine binding|protein binding				0						TGAACCCCACGCAGGCCTTCT	0.632													6	40					0	0	0.003080	0	0	
MYH7B	57644	broad.mit.edu	37	20	33568472	33568472	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:33568472G>A	uc010gfa.1	+	5	555	c.434G>A	c.(433-435)CGC>CAC	p.R145H	MYH7B_uc002xbi.1_Missense_Mutation_p.R187H			A7E2Y1	MYH7B_HUMAN	RecName: Full=Myosin-7B; AltName: Full=Myosin heavy chain 7B, cardiac muscle beta isoform; AltName: Full=Myosin cardiac muscle beta chain; AltName: Full=Antigen MLAA-21; AltName: Full=Slow A MYH14;	145	Myosin head-like.					membrane|myosin filament	actin binding|ATP binding|motor activity			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00691)			AAGGGAAAGCGCCGCTCAGAT	0.582													11	104					0	0	0.001368	0	0	
PROCR	10544	broad.mit.edu	37	20	33764049	33764049	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:33764049C>A	uc002xbt.2	+	3	585	c.401C>A	c.(400-402)GCT>GAT	p.A134D	EDEM2_uc010zuv.1_Intron|PROCR_uc010zuw.1_Missense_Mutation_p.A171D	NM_006404	NP_006395	Q9UNN8	EPCR_HUMAN	endothelial protein C receptor precursor	134	Extracellular (Potential).				antigen processing and presentation|blood coagulation|immune response	integral to plasma membrane|MHC class I protein complex	receptor activity				0			BRCA - Breast invasive adenocarcinoma(18;0.0152)		Drotrecogin alfa(DB00055)	TTCGAAGTGGCTGTGAATGGG	0.602													21	60					7.87624e-14	8.5528e-14	0.002780	1	0	
CEP250	11190	broad.mit.edu	37	20	34060620	34060620	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:34060620G>A	uc002xcm.2	+	13	1844	c.1173G>A	c.(1171-1173)GTG>GTA	p.V391V	CEP250_uc010zve.1_5'UTR|CEP250_uc010zvd.1_RNA	NM_007186	NP_009117	Q9BV73	CP250_HUMAN	centrosomal protein 2	391					centriole-centriole cohesion|G2/M transition of mitotic cell cycle|protein localization|regulation of centriole-centriole cohesion	centriole|cilium|cytosol|microtubule basal body|perinuclear region of cytoplasm|protein complex	protein C-terminus binding|protein kinase binding			ovary(4)|central_nervous_system(1)	5	Lung NSC(9;0.00156)|all_lung(11;0.00243)		BRCA - Breast invasive adenocarcinoma(18;0.0106)			TTACTCTGGTGCGTTCAGTGC	0.507													9	169					0	0	0.008291	0	0	
CEP250	11190	broad.mit.edu	37	20	34091280	34091280	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:34091280C>T	uc002xcm.2	+	31	5754	c.5083C>T	c.(5083-5085)CGA>TGA	p.R1695*	CEP250_uc010zve.1_Nonsense_Mutation_p.R1063*	NM_007186	NP_009117	Q9BV73	CP250_HUMAN	centrosomal protein 2	1695	Gln/Glu-rich.|Potential.				centriole-centriole cohesion|G2/M transition of mitotic cell cycle|protein localization|regulation of centriole-centriole cohesion	centriole|cilium|cytosol|microtubule basal body|perinuclear region of cytoplasm|protein complex	protein C-terminus binding|protein kinase binding			ovary(4)|central_nervous_system(1)	5	Lung NSC(9;0.00156)|all_lung(11;0.00243)		BRCA - Breast invasive adenocarcinoma(18;0.0106)			CTTGAGAGAGCGAGGCCGGGA	0.592													13	115					0	0	0.002450	0	0	
NFS1	9054	broad.mit.edu	37	20	34262504	34262504	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:34262504C>A	uc002xdw.1	-	9	1048	c.984G>T	c.(982-984)CGG>CGT	p.R328R	CPNE1_uc002xdn.1_5'Flank|CPNE1_uc002xdo.1_5'Flank|CPNE1_uc002xdp.1_RNA|NFS1_uc002xdt.1_Silent_p.R268R|NFS1_uc002xdu.1_Silent_p.R268R|NFS1_uc002xdv.1_RNA|NFS1_uc010zvk.1_Silent_p.R126R|NFS1_uc010zvl.1_Silent_p.R277R	NM_021100	NP_066923	Q9Y697	NFS1_HUMAN	NFS1 nitrogen fixation 1 precursor	328					cysteine metabolic process|iron incorporation into metallo-sulfur cluster|Mo-molybdopterin cofactor biosynthetic process|protein complex assembly|water-soluble vitamin metabolic process	cytosol|mitochondrial matrix|nucleus	cysteine desulfurase activity|protein homodimerization activity|pyridoxal phosphate binding			ovary(1)|skin(1)	2	Lung NSC(9;0.00608)|all_lung(11;0.00918)		BRCA - Breast invasive adenocarcinoma(18;0.0886)		L-Alanine(DB00160)|L-Cysteine(DB00151)|Pyridoxal Phosphate(DB00114)	TCTGTATCAGCCGCTCTGACA	0.448													7	72					1.58986e-06	1.6861e-06	0.008291	1	0	
ROMO1	140823	broad.mit.edu	37	20	34288780	34288780	+	Silent	SNP	C	T	T	rs149152641		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:34288780C>T	uc002xdy.2	+	3	339	c.192C>T	c.(190-192)GGC>GGT	p.G64G	NFS1_uc002xdt.1_5'Flank|NFS1_uc002xdu.1_5'Flank|NFS1_uc002xdv.1_5'Flank|NFS1_uc010zvk.1_5'Flank|NFS1_uc010zvl.1_5'Flank|NFS1_uc002xdw.1_5'Flank|NFS1_uc002xdx.2_5'Flank|ROMO1_uc010gfm.2_Silent_p.G64G	NM_080748	NP_542786	P60602	ROMO1_HUMAN	reactive oxygen species modulator 1	64					cellular response to reactive oxygen species|positive regulation of cell proliferation|positive regulation of reactive oxygen species metabolic process|replicative cell aging	integral to membrane|mitochondrial membrane					0						TGCAGAGTGGCGGCACCTTTG	0.522													9	48					0	0	0.004482	0	0	
PHF20	51230	broad.mit.edu	37	20	34526851	34526851	+	Missense_Mutation	SNP	C	T	T	rs144252568		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:34526851C>T	uc002xek.1	+	16	2644	c.2533C>T	c.(2533-2535)CGC>TGC	p.R845C		NM_016436	NP_057520	Q9BVI0	PHF20_HUMAN	PHD finger protein 20	845					regulation of transcription, DNA-dependent|transcription, DNA-dependent	MLL1 complex	DNA binding|zinc ion binding			ovary(1)	1	Breast(12;0.00631)|all_lung(11;0.0145)					CCAGAAGCCCCGCGCCTATTA	0.622													6	33					0	0	0.001984	0	0	
EPB41L1	2036	broad.mit.edu	37	20	34773105	34773105	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:34773105G>A	uc002xfb.2	+	7	804	c.633G>A	c.(631-633)ACG>ACA	p.T211T	EPB41L1_uc002xeu.2_Silent_p.T149T|EPB41L1_uc010zvo.1_Silent_p.T211T|EPB41L1_uc002xev.2_Silent_p.T211T|EPB41L1_uc002xew.2_Silent_p.T114T|EPB41L1_uc002xex.2_Silent_p.T180T|EPB41L1_uc002xey.2_Intron|EPB41L1_uc002xez.2_Silent_p.T149T	NM_012156	NP_036288	Q9H4G0	E41L1_HUMAN	erythrocyte membrane protein band 4.1-like 1	211	FERM.				cortical actin cytoskeleton organization|synaptic transmission	cytoskeleton|cytosol|extrinsic to membrane|plasma membrane	actin binding|structural molecule activity			ovary(2)|pancreas(1)	3	Breast(12;0.0239)					CCTTTGTCACGCATGCCCTAC	0.612													9	30					0	0	0.006214	0	0	
C20orf132	140699	broad.mit.edu	37	20	35788560	35788560	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:35788560C>T	uc010zvu.1	-	8	789	c.698G>A	c.(697-699)CGC>CAC	p.R233H	C20orf132_uc002xgk.2_5'Flank|C20orf132_uc002xgm.2_Missense_Mutation_p.R233H|C20orf132_uc002xgn.2_Missense_Mutation_p.R233H	NM_152503	NP_689716	Q9H579	CT132_HUMAN	hypothetical protein LOC140699 isoform 1	143											0		Myeloproliferative disorder(115;0.00878)				AGAATGCGGGCGTTCCTCTTG	0.542													4	19					0	0	0.000602	0	0	
CTNNBL1	56259	broad.mit.edu	37	20	36500377	36500377	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:36500377G>A	uc010zvw.1	+	17	1745	c.1654G>A	c.(1654-1656)GAG>AAG	p.E552K	CTNNBL1_uc002xhh.2_Missense_Mutation_p.E365K|CTNNBL1_uc002xhi.2_RNA|CTNNBL1_uc002xhj.2_Missense_Mutation_p.E300K	NM_030877	NP_110517	Q8WYA6	CTBL1_HUMAN	beta catenin-like 1	552					apoptosis|positive regulation of apoptosis|somatic diversification of immunoglobulins	nucleus	enzyme binding			ovary(2)	2		Myeloproliferative disorder(115;0.00878)				CCGGGAGAACGAGCAAAAGCG	0.577													4	52					0	0	0.001168	0	0	
TGM2	7052	broad.mit.edu	37	20	36779458	36779458	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:36779458C>T	uc002xhr.2	-	4	535	c.435G>A	c.(433-435)GCG>GCA	p.A145A	TGM2_uc010zvx.1_Silent_p.A64A|TGM2_uc010zvy.1_Silent_p.A85A|TGM2_uc002xhs.1_Silent_p.A121A|TGM2_uc002xht.2_Silent_p.A145A|TGM2_uc002xhu.3_Silent_p.A145A	NM_004613	NP_004604	P21980	TGM2_HUMAN	transglutaminase 2 isoform a	145					apoptotic cell clearance|peptide cross-linking|positive regulation of cell adhesion		acyltransferase activity|metal ion binding|protein binding|protein-glutamine gamma-glutamyltransferase activity			large_intestine(1)|lung(1)|ovary(1)	3		Myeloproliferative disorder(115;0.00878)			L-Glutamine(DB00130)	ACACAGCATCCGCTGCAGGCA	0.587													10	72					0	0	0.002450	0	0	
KIAA1755	85449	broad.mit.edu	37	20	36869866	36869866	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:36869866G>T	uc002xhy.1	-	3	939	c.667C>A	c.(667-669)CCA>ACA	p.P223T	KIAA1755_uc002xhz.1_Missense_Mutation_p.P223T	NM_001029864	NP_001025035	Q5JYT7	K1755_HUMAN	hypothetical protein LOC85449	223										ovary(4)|pancreas(1)	5		Myeloproliferative disorder(115;0.00874)				TGGTTGTCTGGGGAGCTGGCC	0.587													25	50					2.48779e-11	2.68585e-11	0.005443	1	0	
RALGAPB	57148	broad.mit.edu	37	20	37168459	37168459	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:37168459T>A	uc002xiw.2	+	17	2677	c.2420T>A	c.(2419-2421)ATC>AAC	p.I807N	RALGAPB_uc002xix.2_Missense_Mutation_p.I803N|RALGAPB_uc002xiy.1_Missense_Mutation_p.I807N|RALGAPB_uc002xiz.2_Missense_Mutation_p.I585N|RALGAPB_uc002xja.1_Missense_Mutation_p.I534N	NM_020336	NP_065069	Q86X10	RLGPB_HUMAN	Ral GTPase activating protein, beta subunit	807					activation of Ral GTPase activity	intracellular	protein heterodimerization activity|Ral GTPase activator activity			pancreas(1)|skin(1)	2						AAGCGAGCCATCAGTTCTGTG	0.453													5	94					0	0	0.001984	0	0	
RALGAPB	57148	broad.mit.edu	37	20	37194098	37194098	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:37194098T>C	uc002xiw.2	+	25	4051	c.3794T>C	c.(3793-3795)GTT>GCT	p.V1265A	RALGAPB_uc002xix.2_Missense_Mutation_p.V1262A|RALGAPB_uc002xiy.1_Intron|RALGAPB_uc002xiz.2_Missense_Mutation_p.V1044A	NM_020336	NP_065069	Q86X10	RLGPB_HUMAN	Ral GTPase activating protein, beta subunit	1265	Rap-GAP.				activation of Ral GTPase activity	intracellular	protein heterodimerization activity|Ral GTPase activator activity			pancreas(1)|skin(1)	2						GCTTTTGTGGTTCCTTCTCCT	0.383													19	198					0	0	0.002299	0	0	
SLC32A1	140679	broad.mit.edu	37	20	37353656	37353656	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:37353656G>A	uc002xjc.2	+	1	552	c.289G>A	c.(289-291)GGC>AGC	p.G97S		NM_080552	NP_542119	Q9H598	VIAAT_HUMAN	solute carrier family 32, member 1	97	Cytoplasmic (Potential).				neurotransmitter secretion	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|integral to membrane|plasma membrane|synaptic vesicle membrane	vesicular hydrogen:amino acid antiporter activity				0		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)	GCCGCCCTCCGGCTCCAAGGA	0.667													4	45					0	0	0.000602	0	0	
SLC32A1	140679	broad.mit.edu	37	20	37356122	37356122	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:37356122G>A	uc002xjc.2	+	2	681	c.418G>A	c.(418-420)GCC>ACC	p.A140T		NM_080552	NP_542119	Q9H598	VIAAT_HUMAN	solute carrier family 32, member 1	140	Helical; (Potential).				neurotransmitter secretion	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|integral to membrane|plasma membrane|synaptic vesicle membrane	vesicular hydrogen:amino acid antiporter activity				0		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)	CCTACCCTACGCCATCCTGCA	0.647													13	44					0	0	0.004007	0	0	
SLC32A1	140679	broad.mit.edu	37	20	37356232	37356232	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:37356232C>T	uc002xjc.2	+	2	791	c.528C>T	c.(526-528)GAC>GAT	p.D176D		NM_080552	NP_542119	Q9H598	VIAAT_HUMAN	solute carrier family 32, member 1	176	Lumenal, vesicle (Potential).				neurotransmitter secretion	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|integral to membrane|plasma membrane|synaptic vesicle membrane	vesicular hydrogen:amino acid antiporter activity				0		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)	AGAATGAAGACGGCGAGGTGG	0.647													6	43					0	0	0.001168	0	0	
SLC32A1	140679	broad.mit.edu	37	20	37357187	37357187	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:37357187G>A	uc002xjc.2	+	2	1746	c.1483G>A	c.(1483-1485)GCC>ACC	p.A495T		NM_080552	NP_542119	Q9H598	VIAAT_HUMAN	solute carrier family 32, member 1	495	Helical; (Potential).				neurotransmitter secretion	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|integral to membrane|plasma membrane|synaptic vesicle membrane	vesicular hydrogen:amino acid antiporter activity				0		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)	CTTCGACGTCGCCATCTTCGT	0.647													4	24					0	0	0.001168	0	0	
ACTR5	79913	broad.mit.edu	37	20	37380797	37380797	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:37380797G>A	uc002xjd.2	+	3	654	c.629G>A	c.(628-630)CGC>CAC	p.R210H		NM_024855	NP_079131	Q9H9F9	ARP5_HUMAN	ARP5 actin-related protein 5 homolog	210					DNA recombination|double-strand break repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent|UV-damage excision repair	cytoplasm|Ino80 complex	ATP binding|protein binding				0		Myeloproliferative disorder(115;0.00878)				AACTGCAAGCGCATCAATCTT	0.493													7	61					0	0	0.003080	0	0	
PPP1R16B	26051	broad.mit.edu	37	20	37531340	37531340	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:37531340C>T	uc002xje.2	+	6	790	c.601C>T	c.(601-603)CGG>TGG	p.R201W	PPP1R16B_uc010ggc.2_Missense_Mutation_p.R201W	NM_015568	NP_056383	Q96T49	PP16B_HUMAN	protein phosphatase 1 regulatory inhibitor	201					regulation of filopodium assembly|signal transduction	nucleus|plasma membrane	protein phosphatase binding			upper_aerodigestive_tract(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				CAACGAGATGCGGGTGGCTCC	0.582													10	124					0	0	0.000978	0	0	
DHX35	60625	broad.mit.edu	37	20	37634988	37634988	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:37634988G>A	uc002xjh.2	+	12	1222	c.1211G>A	c.(1210-1212)CGC>CAC	p.R404H	DHX35_uc010zwa.1_Missense_Mutation_p.R249H|DHX35_uc010zwb.1_Missense_Mutation_p.R249H|DHX35_uc010zwc.1_Missense_Mutation_p.R373H	NM_021931	NP_068750	Q9H5Z1	DHX35_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 35	404	Helicase C-terminal.					catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|nucleic acid binding			lung(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				AAATGTTATCGCCTTTATACA	0.478													25	121					0	0	0.002780	0	0	
DHX35	60625	broad.mit.edu	37	20	37653971	37653971	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:37653971C>A	uc002xjh.2	+	18	1781	c.1770C>A	c.(1768-1770)GTC>GTA	p.V590V	DHX35_uc010zwa.1_Silent_p.V435V|DHX35_uc010zwb.1_Silent_p.V435V|DHX35_uc010zwc.1_Silent_p.V559V	NM_021931	NP_068750	Q9H5Z1	DHX35_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 35	590						catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|nucleic acid binding			lung(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				AGCTTCTTGTCAAGTTTCAAG	0.438													198	195					1.69577e-87	1.86471e-87	0.003610	1	0	
PLCG1	5335	broad.mit.edu	37	20	39798904	39798904	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:39798904G>A	uc002xjp.1	+	24	2924	c.2803G>A	c.(2803-2805)GCC>ACC	p.A935T	PLCG1_uc002xjo.1_Missense_Mutation_p.A935T|PLCG1_uc010zwe.1_Missense_Mutation_p.A561T|PLCG1_uc010ggf.2_Missense_Mutation_p.A259T	NM_182811	NP_877963	P19174	PLCG1_HUMAN	phospholipase C, gamma 1 isoform b	935					activation of phospholipase C activity|axon guidance|blood coagulation|cellular response to epidermal growth factor stimulus|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|interspecies interaction between organisms|intracellular signal transduction|leukocyte migration|nerve growth factor receptor signaling pathway|phospholipid catabolic process|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of epithelial cell migration|T cell receptor signaling pathway	cytosol|lamellipodium|plasma membrane|ruffle	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|receptor signaling protein activity			lung(3)|breast(3)|skin(2)	8		Myeloproliferative disorder(115;0.00878)				GACAGCAGACGCCAGGGTGAG	0.647													11	32					0	0	0.004990	0	0	
ZHX3	23051	broad.mit.edu	37	20	39831218	39831218	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:39831218C>T	uc002xjs.1	-	3	2717	c.2339G>A	c.(2338-2340)CGG>CAG	p.R780Q	ZHX3_uc002xjq.1_Intron|ZHX3_uc002xjr.1_Missense_Mutation_p.R780Q|ZHX3_uc002xjt.1_Missense_Mutation_p.R780Q|ZHX3_uc002xju.1_Missense_Mutation_p.R780Q|ZHX3_uc002xjv.1_Missense_Mutation_p.R780Q|ZHX3_uc002xjw.1_Missense_Mutation_p.R780Q|ZHX3_uc010ggg.1_Missense_Mutation_p.R780Q	NM_015035	NP_055850	Q9H4I2	ZHX3_HUMAN	zinc fingers and homeoboxes 3	780	Homeobox 4.				negative regulation of transcription, DNA-dependent	cytoplasm|nucleolus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3		Myeloproliferative disorder(115;0.00425)				AAAGAGCTGCCGCAGCAAGTG	0.587													21	37					0	0	0.009535	0	0	
ZHX3	23051	broad.mit.edu	37	20	39831460	39831460	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:39831460C>T	uc002xjs.1	-	3	2475	c.2097G>A	c.(2095-2097)GAG>GAA	p.E699E	ZHX3_uc002xjq.1_Intron|ZHX3_uc002xjr.1_Silent_p.E699E|ZHX3_uc002xjt.1_Silent_p.E699E|ZHX3_uc002xju.1_Silent_p.E699E|ZHX3_uc002xjv.1_Silent_p.E699E|ZHX3_uc002xjw.1_Silent_p.E699E|ZHX3_uc010ggg.1_Silent_p.E699E	NM_015035	NP_055850	Q9H4I2	ZHX3_HUMAN	zinc fingers and homeoboxes 3	699					negative regulation of transcription, DNA-dependent	cytoplasm|nucleolus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3		Myeloproliferative disorder(115;0.00425)				AGACCCTTAGCTCACTGGCCA	0.517													6	108					0	0	0.001168	0	0	
EMILIN3	90187	broad.mit.edu	37	20	39993728	39993728	+	Silent	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:39993728T>A	uc002xjy.1	-	2	461	c.237A>T	c.(235-237)GTA>GTT	p.V79V		NM_052846	NP_443078	Q9NT22	EMIL3_HUMAN	elastin microfibril interfacer 3	79	EMI.					proteinaceous extracellular matrix				ovary(1)	1		Myeloproliferative disorder(115;0.00425)				ATTCAGCCTTTACGTAGCTCT	0.572													4	63					0	0	0.009096	0	0	
CHD6	84181	broad.mit.edu	37	20	40050618	40050618	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:40050618G>A	uc002xka.1	-	31	4835	c.4657C>T	c.(4657-4659)CTC>TTC	p.L1553F		NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	1553					chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				GGGCACTTGAGCACTTGCTCT	0.557													18	49					0	0	0.006122	0	0	
CHD6	84181	broad.mit.edu	37	20	40111989	40111989	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:40111989G>A	uc002xka.1	-	16	2606	c.2428C>T	c.(2428-2430)CGC>TGC	p.R810C	CHD6_uc002xkd.2_Missense_Mutation_p.R788C	NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	810	Helicase C-terminal.				chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				TCGAGGCAGCGCACCATCTGG	0.463													20	75					0	0	0.003330	0	0	
CHD6	84181	broad.mit.edu	37	20	40120415	40120415	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:40120415G>A	uc002xka.1	-	11	1537	c.1359C>T	c.(1357-1359)CGC>CGT	p.R453R	CHD6_uc002xkd.2_Silent_p.R431R	NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	453					chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				TCTTATACTCGCGAGACTTCT	0.468													10	78					0	0	0.006214	0	0	
PTPRT	11122	broad.mit.edu	37	20	40714491	40714491	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:40714491G>T	uc002xkg.2	-	28	4033	c.3849C>A	c.(3847-3849)TTC>TTA	p.F1283L	PTPRT_uc010ggj.2_Missense_Mutation_p.F1302L|PTPRT_uc010ggi.2_Missense_Mutation_p.F486L	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	1283	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				ACTGCATACAGAACTGAGATA	0.463													8	71					1.58986e-06	1.6861e-06	0.008291	1	0	
PTPRT	11122	broad.mit.edu	37	20	41400120	41400120	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:41400120G>A	uc002xkg.2	-	5	823	c.639C>T	c.(637-639)TGC>TGT	p.C213C	PTPRT_uc010ggj.2_Silent_p.C213C	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	213	Extracellular (Potential).|Ig-like C2-type.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				CACCAGCAATGCACTGAAATG	0.468													53	309					0	0	0.003610	0	0	
SFRS6	6431	broad.mit.edu	37	20	42088823	42088823	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:42088823C>A	uc010zwg.1	+	4	702	c.532C>A	c.(532-534)CTT>ATT	p.L178I	SFRS6_uc002xki.2_Missense_Mutation_p.L49I|SFRS6_uc002xkk.2_Missense_Mutation_p.L178I	NM_006275	NP_006266	Q13247	SRSF6_HUMAN	arginine/serine-rich splicing factor 6	178	RRM 2.				mRNA 3'-end processing|mRNA export from nucleus|mRNA splice site selection|termination of RNA polymerase II transcription	nucleoplasm	nucleotide binding|protein binding|RNA binding				0		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			AAATATTAGGCTTATTGAAGA	0.433													12	44					0.000978159	0.00101915	0.000978	1	0	
MYBL2	4605	broad.mit.edu	37	20	42311438	42311438	+	Missense_Mutation	SNP	G	A	A	rs149840592		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:42311438G>A	uc002xlb.1	+	4	406	c.191G>A	c.(190-192)CGC>CAC	p.R64H	MYBL2_uc010zwj.1_Missense_Mutation_p.R40H|MYBL2_uc002xla.1_Missense_Mutation_p.R64H	NM_002466	NP_002457	P10244	MYBB_HUMAN	MYB-related protein B	64	H-T-H motif (By similarity).|HTH myb-type 1.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(3)|kidney(2)	5		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			TCCCAGAACCGCACTGACCAG	0.527													45	336					0	0	0.003610	0	0	
MYBL2	4605	broad.mit.edu	37	20	42338670	42338670	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:42338670G>A	uc002xlb.1	+	10	1788	c.1573G>A	c.(1573-1575)GCC>ACC	p.A525T	MYBL2_uc010zwj.1_Missense_Mutation_p.A501T	NM_002466	NP_002457	P10244	MYBB_HUMAN	MYB-related protein B	525						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(3)|kidney(2)	5		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			GTTCAAGAACGCCCTGGAGAA	0.582													37	247					0	0	0.006999	0	0	
JPH2	57158	broad.mit.edu	37	20	42815111	42815111	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:42815111G>A	uc002xli.1	-	1	1108	c.235C>T	c.(235-237)CGC>TGC	p.R79C	JPH2_uc002xlj.2_Missense_Mutation_p.R79C	NM_020433	NP_065166	Q9BR39	JPH2_HUMAN	junctophilin 2 isoform 1	79	Gly-rich.|MORN 3.|Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane|plasma membrane					0		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			TAGAGCCAGCGCCCCTTGGTC	0.597													9	59					0	0	0.002450	0	0	
PABPC1L	80336	broad.mit.edu	37	20	43559194	43559194	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:43559194C>T	uc010ggv.1	+	8	1148	c.1066C>T	c.(1066-1068)CGC>TGC	p.R356C	PABPC1L_uc010zwq.1_RNA|PABPC1L_uc002xmv.2_RNA|PABPC1L_uc002xmw.2_5'Flank|PABPC1L_uc002xmx.2_5'Flank	NM_001124756	NP_001118228	Q4VXU2	PAP1L_HUMAN	poly(A)-binding protein, cytoplasmic 1-like	356	RRM 4.						nucleotide binding|RNA binding			ovary(1)	1						GATGAACGGGCGCATCGTGGG	0.577													9	141					0	0	0.004482	0	0	
STK4	6789	broad.mit.edu	37	20	43607098	43607098	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:43607098T>C	uc002xnb.2	+	3	221	c.131T>C	c.(130-132)GTA>GCA	p.V44A	STK4_uc010ggx.2_Missense_Mutation_p.V44A|STK4_uc010ggy.2_Missense_Mutation_p.V44A|STK4_uc010ggw.1_Missense_Mutation_p.V44A	NM_006282	NP_006273	Q13043	STK4_HUMAN	serine/threonine kinase 4	44	ATP (By similarity).|Protein kinase.				apoptosis|cell morphogenesis|hippo signaling cascade|intracellular protein kinase cascade|negative regulation of canonical Wnt receptor signaling pathway|peptidyl-serine phosphorylation|positive regulation of apoptosis|protein autophosphorylation	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein homodimerization activity|protein serine/threonine kinase activator activity|protein serine/threonine kinase activity|transcription factor binding			ovary(1)|skin(1)	2		Myeloproliferative disorder(115;0.0122)				TATGGCAGCGTATACAAAGCT	0.378													7	70					0	0	0.006214	0	0	
RBPJL	11317	broad.mit.edu	37	20	43940918	43940918	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:43940918C>T	uc002xns.2	+	6	574	c.502C>T	c.(502-504)CGG>TGG	p.R168W	RBPJL_uc002xnt.2_Missense_Mutation_p.R168W	NM_014276	NP_055091	Q9UBG7	RBPJL_HUMAN	recombining binding protein L	168					signal transduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				GAAGCACTTTcggctggtgct	0.517													4	21					0	0	0.001984	0	0	
ZNF335	63925	broad.mit.edu	37	20	44592274	44592274	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:44592274C>T	uc002xqw.2	-	9	1494	c.1371G>A	c.(1369-1371)TCG>TCA	p.S457S	ZNF335_uc010zxk.1_Silent_p.S302S	NM_022095	NP_071378	Q9H4Z2	ZN335_HUMAN	zinc finger protein 335	457					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)|ovary(1)	4		Myeloproliferative disorder(115;0.0122)				GTGGTTTGGGCGACTTGTAAT	0.577													13	173					0	0	0.004990	0	0	
SLC12A5	57468	broad.mit.edu	37	20	44678261	44678261	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:44678261G>A	uc010zxl.1	+	17	2158	c.2082G>A	c.(2080-2082)AGG>AGA	p.R694R	SLC12A5_uc010zxm.1_RNA|SLC12A5_uc002xrb.2_Silent_p.R671R	NM_001134771	NP_001128243	Q9H2X9	S12A5_HUMAN	solute carrier family 12 (potassium-chloride	694					potassium ion transport|sodium ion transport	integral to membrane	potassium:chloride symporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5		Myeloproliferative disorder(115;0.0122)			Bumetanide(DB00887)|Potassium Chloride(DB00761)	CACTCTTCAGGCCACAGCTGC	0.552													3	19					0	0	0.004672	0	0	
SLC12A5	57468	broad.mit.edu	37	20	44680471	44680471	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:44680471G>A	uc010zxl.1	+	18	2484	c.2408G>A	c.(2407-2409)CGC>CAC	p.R803H	SLC12A5_uc002xrb.2_Missense_Mutation_p.R780H	NM_001134771	NP_001128243	Q9H2X9	S12A5_HUMAN	solute carrier family 12 (potassium-chloride	803					potassium ion transport|sodium ion transport	integral to membrane	potassium:chloride symporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5		Myeloproliferative disorder(115;0.0122)			Bumetanide(DB00887)|Potassium Chloride(DB00761)	CGCAACTGGCGCCAGAAGGAA	0.617													7	37					0	0	0.000978	0	0	
SLC12A5	57468	broad.mit.edu	37	20	44685882	44685882	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:44685882G>A	uc010zxl.1	+	25	3344	c.3268G>A	c.(3268-3270)GCC>ACC	p.A1090T	SLC12A5_uc002xrb.2_Missense_Mutation_p.A1067T	NM_001134771	NP_001128243	Q9H2X9	S12A5_HUMAN	solute carrier family 12 (potassium-chloride	1090	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport	integral to membrane	potassium:chloride symporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5		Myeloproliferative disorder(115;0.0122)			Bumetanide(DB00887)|Potassium Chloride(DB00761)	ATCCCGGGACGCCAAGCTTGT	0.577													16	120					0	0	0.004990	0	0	
NCOA5	57727	broad.mit.edu	37	20	44695817	44695817	+	Missense_Mutation	SNP	C	T	T	rs138863222	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:44695817C>T	uc002xrd.2	-	4	1034	c.506G>A	c.(505-507)CGT>CAT	p.R169H	NCOA5_uc002xrc.2_Missense_Mutation_p.R57H|NCOA5_uc002xre.2_Missense_Mutation_p.R169H	NM_020967	NP_066018	Q9HCD5	NCOA5_HUMAN	nuclear receptor coactivator 5	169					regulation of transcription, DNA-dependent|transcription, DNA-dependent|translation	nucleus	aminoacyl-tRNA ligase activity|ATP binding			central_nervous_system(1)|skin(1)	2		Myeloproliferative disorder(115;0.0122)				ACGTTTCAAACGCTCTGCAAA	0.433													7	150					0	0	0.001984	0	0	
NCOA5	57727	broad.mit.edu	37	20	44698981	44698981	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:44698981A>G	uc002xrd.2	-	2	761	c.233T>C	c.(232-234)GTG>GCG	p.V78A	NCOA5_uc002xrc.2_5'UTR|NCOA5_uc002xre.2_Missense_Mutation_p.V78A	NM_020967	NP_066018	Q9HCD5	NCOA5_HUMAN	nuclear receptor coactivator 5	78	Arg/Asp-rich (mixed charge).|Transcription repression.				regulation of transcription, DNA-dependent|transcription, DNA-dependent|translation	nucleus	aminoacyl-tRNA ligase activity|ATP binding			central_nervous_system(1)|skin(1)	2		Myeloproliferative disorder(115;0.0122)				AACGTCGCGCACACTCCTGCT	0.552													18	174					0	0	0.010504	0	0	
CDH22	64405	broad.mit.edu	37	20	44845612	44845612	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:44845612G>A	uc002xrm.2	-	4	1092	c.691C>T	c.(691-693)CCT>TCT	p.P231S	CDH22_uc010ghk.1_Missense_Mutation_p.P231S|CDH22_uc002xrn.1_5'UTR	NM_021248	NP_067071	Q9UJ99	CAD22_HUMAN	cadherin 22 precursor	231	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|skin(1)	5		Myeloproliferative disorder(115;0.0122)				TCAAGGTCAGGCACAGCCGTC	0.657													5	55					0	0	0.001168	0	0	
ELMO2	63916	broad.mit.edu	37	20	45003964	45003964	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:45003964C>T	uc002xrt.1	-	13	1186	c.976G>A	c.(976-978)GCA>ACA	p.A326T	ELMO2_uc010zxq.1_Missense_Mutation_p.A58T|ELMO2_uc002xrs.1_Missense_Mutation_p.A73T|ELMO2_uc002xru.1_Missense_Mutation_p.A326T|ELMO2_uc010zxr.1_Missense_Mutation_p.A338T|ELMO2_uc010zxs.1_Missense_Mutation_p.A143T|ELMO2_uc002xrv.1_Missense_Mutation_p.A45T|ELMO2_uc002xrw.2_Missense_Mutation_p.A143T|ELMO2_uc002xrx.1_Missense_Mutation_p.A326T	NM_133171	NP_573403	Q96JJ3	ELMO2_HUMAN	engulfment and cell motility 2	326	ELMO.				apoptosis|cell chemotaxis|phagocytosis	cytoskeleton|cytosol|membrane	lyase activity|receptor tyrosine kinase binding|SH3 domain binding			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				TCAGACTCTGCGTCAAATGCA	0.493													16	76					0	0	0.004990	0	0	
SLC13A3	64849	broad.mit.edu	37	20	45212284	45212284	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:45212284G>A	uc002xsf.1	-	9	1184	c.1146C>T	c.(1144-1146)GGC>GGT	p.G382G	SLC13A3_uc010ghn.1_Silent_p.G351G|SLC13A3_uc010zxw.1_Silent_p.G332G|SLC13A3_uc002xsg.1_Silent_p.G335G|SLC13A3_uc010gho.1_Silent_p.G300G|SLC13A3_uc010zxx.1_Silent_p.G284G|SLC13A3_uc010zxv.1_Missense_Mutation_p.A5V	NM_022829	NP_073740	Q8WWT9	S13A3_HUMAN	solute carrier family 13 member 3 isoform a	382	Helical; (Potential).					integral to membrane|plasma membrane	high affinity sodium:dicarboxylate symporter activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)			Succinic acid(DB00139)	CAATAGCCACGCCGGTGACAG	0.532													27	86					0	0	0.002836	0	0	
EYA2	2139	broad.mit.edu	37	20	45702898	45702898	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:45702898G>A	uc002xsm.2	+	7	959	c.585G>A	c.(583-585)TCG>TCA	p.S195S	EYA2_uc010ghp.2_Silent_p.S195S|EYA2_uc002xsn.2_Silent_p.S200S|EYA2_uc002xso.2_Silent_p.S195S|EYA2_uc002xsp.2_Silent_p.S195S|EYA2_uc002xsq.2_Silent_p.S195S	NM_005244	NP_005235	O00167	EYA2_HUMAN	eyes absent 2 isoform a	195					DNA repair|histone dephosphorylation|mesodermal cell fate specification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	magnesium ion binding|protein binding|protein tyrosine phosphatase activity			ovary(1)	1		Myeloproliferative disorder(115;0.0241)				TCTGCCCTTCGCCCCTCTCCA	0.617													7	91					0	0	0.006214	0	0	
ZMYND8	23613	broad.mit.edu	37	20	45910870	45910870	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:45910870G>A	uc002xta.1	-	10	1168	c.914C>T	c.(913-915)GCC>GTC	p.A305V	ZMYND8_uc010ghr.1_Missense_Mutation_p.A280V|ZMYND8_uc002xst.1_Missense_Mutation_p.A280V|ZMYND8_uc002xsu.1_Missense_Mutation_p.A305V|ZMYND8_uc002xsv.1_Missense_Mutation_p.A280V|ZMYND8_uc002xsw.1_Missense_Mutation_p.A57V|ZMYND8_uc002xsx.1_Missense_Mutation_p.A57V|ZMYND8_uc002xsy.1_Missense_Mutation_p.A280V|ZMYND8_uc002xsz.1_Missense_Mutation_p.A242V|ZMYND8_uc010zxy.1_Missense_Mutation_p.A332V|ZMYND8_uc002xtb.1_Missense_Mutation_p.A325V|ZMYND8_uc002xss.2_Missense_Mutation_p.A305V|ZMYND8_uc010zxz.1_Missense_Mutation_p.A300V|ZMYND8_uc002xtc.1_Missense_Mutation_p.A325V|ZMYND8_uc002xtd.1_Missense_Mutation_p.A300V|ZMYND8_uc002xte.1_Missense_Mutation_p.A305V|ZMYND8_uc010zya.1_Missense_Mutation_p.A305V|ZMYND8_uc002xtf.1_Missense_Mutation_p.A325V|ZMYND8_uc002xtg.2_Missense_Mutation_p.A299V|ZMYND8_uc010ghs.1_Missense_Mutation_p.A299V	NM_012408	NP_036540	Q9ULU4	PKCB1_HUMAN	zinc finger, MYND-type containing 8 isoform b	305	PWWP.						protein binding|zinc ion binding			central_nervous_system(2)|urinary_tract(1)|ovary(1)|skin(1)	5			Epithelial(1;0.0289)|all cancers(1;0.0962)|OV - Ovarian serous cystadenocarcinoma(1;0.154)			AAAGAATCGGGCATCGACCTG	0.448													6	135					0	0	0.004482	0	0	
NCOA3	8202	broad.mit.edu	37	20	46264165	46264165	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:46264165G>A	uc002xtk.2	+	11	1417	c.1212G>A	c.(1210-1212)TCG>TCA	p.S404S	NCOA3_uc010ght.1_Silent_p.S414S|NCOA3_uc002xtl.2_Silent_p.S404S|NCOA3_uc002xtm.2_Silent_p.S404S|NCOA3_uc002xtn.2_Silent_p.S404S|NCOA3_uc010zyc.1_Silent_p.S199S	NM_181659	NP_858045	Q9Y6Q9	NCOA3_HUMAN	nuclear receptor coactivator 3 isoform a	404					androgen receptor signaling pathway|cellular lipid metabolic process|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleoplasm	androgen receptor binding|histone acetyltransferase activity|ligand-dependent nuclear receptor binding|protein N-terminus binding|signal transducer activity|thyroid hormone receptor binding			ovary(3)|lung(1)|skin(1)	5						TGAGTATGTCGCCAAACCAAG	0.532													8	63					0	0	0.004482	0	0	
PREX1	57580	broad.mit.edu	37	20	47247280	47247280	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:47247280C>T	uc002xtw.1	-	36	4602	c.4579G>A	c.(4579-4581)GTA>ATA	p.V1527I	PREX1_uc002xtv.1_Missense_Mutation_p.V824I	NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	1527					actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			TCTATCTTTACCGCCGTGGTG	0.627													6	59					0	0	0.001984	0	0	
PREX1	57580	broad.mit.edu	37	20	47364404	47364404	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:47364404C>T	uc002xtw.1	-	2	256	c.233G>A	c.(232-234)CGC>CAC	p.R78H		NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	78	DH.				actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			CTGCCGGATGCGATGCAGGAA	0.592													4	34					0	0	0.009096	0	0	
ARFGEF2	10564	broad.mit.edu	37	20	47614883	47614883	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:47614883C>T	uc002xtx.3	+	25	3425	c.3273C>T	c.(3271-3273)GTC>GTT	p.V1091V	ARFGEF2_uc010zyf.1_Silent_p.V384V	NM_006420	NP_006411	Q9Y6D5	BIG2_HUMAN	ADP-ribosylation factor guanine	1091					exocytosis|intracellular signal transduction|regulation of ARF protein signal transduction	cytosol|Golgi membrane	ARF guanyl-nucleotide exchange factor activity			breast(3)|upper_aerodigestive_tract(1)	4			BRCA - Breast invasive adenocarcinoma(12;0.00148)|Colorectal(8;0.198)			TTGACTTTGTCCGCTGGCTGT	0.507													12	79					0	0	0.002450	0	0	
ARFGEF2	10564	broad.mit.edu	37	20	47639702	47639702	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:47639702A>G	uc002xtx.3	+	35	4891	c.4739A>G	c.(4738-4740)CAC>CGC	p.H1580R	ARFGEF2_uc010zyf.1_Missense_Mutation_p.H873R	NM_006420	NP_006411	Q9Y6D5	BIG2_HUMAN	ADP-ribosylation factor guanine	1580					exocytosis|intracellular signal transduction|regulation of ARF protein signal transduction	cytosol|Golgi membrane	ARF guanyl-nucleotide exchange factor activity			breast(3)|upper_aerodigestive_tract(1)	4			BRCA - Breast invasive adenocarcinoma(12;0.00148)|Colorectal(8;0.198)			GATGCAGAGCACATGGTTGCC	0.453													14	49					0	0	0.004990	0	0	
STAU1	6780	broad.mit.edu	37	20	47734608	47734608	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:47734608C>T	uc002xud.2	-	11	1626	c.1215G>A	c.(1213-1215)ATG>ATA	p.M405I	STAU1_uc002xua.2_Missense_Mutation_p.M324I|STAU1_uc002xub.2_Missense_Mutation_p.M330I|STAU1_uc002xuc.2_Missense_Mutation_p.M324I|STAU1_uc002xue.2_Missense_Mutation_p.M324I|STAU1_uc002xuf.2_Missense_Mutation_p.M330I|STAU1_uc002xug.2_Missense_Mutation_p.M405I	NM_017453	NP_059347	O95793	STAU1_HUMAN	staufen isoform b	405						microtubule associated complex|rough endoplasmic reticulum|stress granule	double-stranded RNA binding			ovary(4)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(12;0.000644)|Colorectal(8;0.198)			TTAGATAAGGCATCCTGAACT	0.498													10	107					0	0	0.001855	0	0	
ZNFX1	57169	broad.mit.edu	37	20	47887009	47887009	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:47887009C>T	uc002xui.2	-	3	1587	c.1340G>A	c.(1339-1341)CGA>CAA	p.R447Q		NM_021035	NP_066363	Q9P2E3	ZNFX1_HUMAN	zinc finger, NFX1-type containing 1	447							metal ion binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.00173)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			ATAGAGCAATCGTTTGGAATT	0.463													10	237					0	0	0.001368	0	0	
SLC9A8	23315	broad.mit.edu	37	20	48503391	48503391	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:48503391G>A	uc002xuv.1	+	15	1804	c.1594G>A	c.(1594-1596)GCC>ACC	p.A532T	SLC9A8_uc010zym.1_Missense_Mutation_p.A232T|SLC9A8_uc010gid.2_Missense_Mutation_p.A156T	NM_015266	NP_056081	Q9Y2E8	SL9A8_HUMAN	sodium/hydrogen exchanger 8	532						Golgi membrane|integral to membrane	sodium:hydrogen antiporter activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(9;3.91e-07)			GTGGCTGGACGCCAAGTACCT	0.622													5	54					0	0	0.003080	0	0	
TMEM189	387521	broad.mit.edu	37	20	48741643	48741643	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:48741643G>A	uc002xvg.2	-	6	926	c.765C>T	c.(763-765)GGC>GGT	p.G255G	TMEM189-UBE2V1_uc002xvf.2_Intron|TMEM189_uc010zyq.1_RNA|TMEM189_uc010gif.2_Silent_p.G252G|TMEM189_uc010zyp.1_Silent_p.G180G	NM_199129	NP_954580	A5PLL7	TM189_HUMAN	transmembrane protein 189 isoform 1	255						endoplasmic reticulum membrane|integral to membrane					0			BRCA - Breast invasive adenocarcinoma(9;3.02e-07)			GAGGCTTCTCGCCCGTCAGGC	0.572													14	48					0	0	0.004007	0	0	
PARD6B	84612	broad.mit.edu	37	20	49366779	49366779	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:49366779C>T	uc002xvo.2	+	3	1116	c.873C>T	c.(871-873)AGC>AGT	p.S291S		NM_032521	NP_115910	Q9BYG5	PAR6B_HUMAN	PAR-6 beta	291					axonogenesis|cell cycle|cell division|establishment or maintenance of cell polarity|protein complex assembly|regulation of cell migration|tight junction assembly	cytosol|tight junction	protein binding			kidney(1)	1						ATGAAGACAGCGAAGAAGATG	0.468													16	197					0	0	0.006122	0	0	
BCAS4	55653	broad.mit.edu	37	20	49446904	49446904	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:49446904T>C	uc002xvq.2	+	3	405	c.341T>C	c.(340-342)GTG>GCG	p.V114A	BCAS4_uc002xvp.1_Missense_Mutation_p.V114A|BCAS4_uc002xvr.2_Missense_Mutation_p.V114A|BCAS4_uc002xvs.2_Missense_Mutation_p.V114A	NM_017843	NP_060313	Q8TDM0	BCAS4_HUMAN	breast carcinoma amplified sequence 4 isoform a	114						cytoplasm					0						TATGCCAAAGTGGACCGGCTA	0.502													15	90					0	0	0.004990	0	0	
ATP9A	10079	broad.mit.edu	37	20	50305609	50305609	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:50305609C>T	uc002xwg.1	-	9	793	c.793G>A	c.(793-795)GCA>ACA	p.A265T	ATP9A_uc010gih.1_Intron|ATP9A_uc002xwf.1_5'UTR	NM_006045	NP_006036	O75110	ATP9A_HUMAN	ATPase, class II, type 9A	265	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(4)	4						TCACCTGATGCGACCACAGTG	0.483													8	167					0	0	0.008291	0	0	
SALL4	57167	broad.mit.edu	37	20	50407173	50407173	+	Silent	SNP	G	T	T	rs74315427		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:50407173G>T	uc002xwh.3	-	2	1950	c.1849C>A	c.(1849-1851)CGA>AGA	p.R617R	SALL4_uc010gii.2_Intron|SALL4_uc002xwi.3_Intron	NM_020436	NP_065169	Q9UJQ4	SALL4_HUMAN	sal-like 4	617					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						GTGTTGGTTCGGTGAACCCCA	0.522													12	62					1.3612e-06	1.44477e-06	0.003163	1	0	
SALL4	57167	broad.mit.edu	37	20	50408447	50408447	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:50408447G>A	uc002xwh.3	-	2	676	c.575C>T	c.(574-576)GCG>GTG	p.A192V	SALL4_uc010gii.2_Missense_Mutation_p.A192V|SALL4_uc002xwi.3_Intron	NM_020436	NP_065169	Q9UJQ4	SALL4_HUMAN	sal-like 4	192					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						CTGATTCACCGCCACCTTGGT	0.612													29	103					0	0	0.009535	0	0	
SALL4	57167	broad.mit.edu	37	20	50408840	50408840	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:50408840G>A	uc002xwh.3	-	2	283	c.182C>T	c.(181-183)GCC>GTC	p.A61V	SALL4_uc010gii.2_Missense_Mutation_p.A61V|SALL4_uc002xwi.3_Intron	NM_020436	NP_065169	Q9UJQ4	SALL4_HUMAN	sal-like 4	61					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						CTTTACTGTGGCTTCATCCTC	0.502													6	55					0	0	0.003080	0	0	
ZFP64	55734	broad.mit.edu	37	20	50701279	50701279	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:50701279G>A	uc002xwk.2	-	9	2104	c.1755C>T	c.(1753-1755)TGC>TGT	p.C585C	ZFP64_uc002xwj.2_Silent_p.C366C	NM_199427	NP_955459	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform d	430	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						AGGAGGCGCCGCAGGTCTCAC	0.612													8	32					0	0	0.004482	0	0	
ZFP64	55734	broad.mit.edu	37	20	50781293	50781293	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:50781293C>G	uc002xwl.2	-	4	801	c.452G>C	c.(451-453)TGC>TCC	p.C151S	ZFP64_uc002xwk.2_Missense_Mutation_p.C151S|ZFP64_uc002xwm.2_Missense_Mutation_p.C149S|ZFP64_uc002xwn.2_Missense_Mutation_p.C97S	NM_018197	NP_060667	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform a	151					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						CTTGAATTGGCAACCTAAAAA	0.254													6	61					0	0	0.001168	0	0	
TSHZ2	128553	broad.mit.edu	37	20	51873088	51873088	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:51873088G>A	uc002xwo.2	+	2	4047	c.3091G>A	c.(3091-3093)GTG>ATG	p.V1031M		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	1031					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			TGTAACAGACGTGGATGAAGA	0.493													6	210					0	0	0.001168	0	0	
ZNF217	7764	broad.mit.edu	37	20	52193292	52193292	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:52193292C>T	uc002xwq.3	-	3	2282	c.2011G>A	c.(2011-2013)GCA>ACA	p.A671T	ZNF217_uc010gij.1_Missense_Mutation_p.A663T	NM_006526	NP_006517	O75362	ZN217_HUMAN	zinc finger protein 217	671					negative regulation of transcription, DNA-dependent	histone deacetylase complex	protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|lung(1)|breast(1)	6	all_cancers(1;6.75e-17)|all_epithelial(1;1.76e-18)|Breast(2;3.83e-14)|Lung NSC(4;9.04e-07)|all_lung(4;2.5e-06)|Ovarian(1;0.0398)		BRCA - Breast invasive adenocarcinoma(1;9.88e-17)|Epithelial(1;1.56e-14)|all cancers(1;9.44e-13)|STAD - Stomach adenocarcinoma(23;0.0474)|Colorectal(105;0.198)			CAGTCAGCTGCGGTCTCCGTT	0.483													13	240					0	0	0.002450	0	0	
ZNF217	7764	broad.mit.edu	37	20	52198090	52198090	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:52198090C>T	uc002xwq.3	-	1	1547	c.1276G>A	c.(1276-1278)GCC>ACC	p.A426T	ZNF217_uc010gij.1_Missense_Mutation_p.A418T	NM_006526	NP_006517	O75362	ZN217_HUMAN	zinc finger protein 217	426					negative regulation of transcription, DNA-dependent	histone deacetylase complex	protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|lung(1)|breast(1)	6	all_cancers(1;6.75e-17)|all_epithelial(1;1.76e-18)|Breast(2;3.83e-14)|Lung NSC(4;9.04e-07)|all_lung(4;2.5e-06)|Ovarian(1;0.0398)		BRCA - Breast invasive adenocarcinoma(1;9.88e-17)|Epithelial(1;1.56e-14)|all cancers(1;9.44e-13)|STAD - Stomach adenocarcinoma(23;0.0474)|Colorectal(105;0.198)			TCCAGAGGGGCGGCGAGGTCA	0.637													7	39					0	0	0.003080	0	0	
ZNF217	7764	broad.mit.edu	37	20	52198529	52198529	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:52198529C>T	uc002xwq.3	-	1	1108	c.837G>A	c.(835-837)ACG>ACA	p.T279T	ZNF217_uc010gij.1_Silent_p.T271T	NM_006526	NP_006517	O75362	ZN217_HUMAN	zinc finger protein 217	279					negative regulation of transcription, DNA-dependent	histone deacetylase complex	protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding	p.T279M(1)		skin(2)|ovary(1)|large_intestine(1)|lung(1)|breast(1)	6	all_cancers(1;6.75e-17)|all_epithelial(1;1.76e-18)|Breast(2;3.83e-14)|Lung NSC(4;9.04e-07)|all_lung(4;2.5e-06)|Ovarian(1;0.0398)		BRCA - Breast invasive adenocarcinoma(1;9.88e-17)|Epithelial(1;1.56e-14)|all cancers(1;9.44e-13)|STAD - Stomach adenocarcinoma(23;0.0474)|Colorectal(105;0.198)			GCTTCTTCCCCGTTTCAGGGT	0.547													9	121					0	0	0.008291	0	0	
SUMO1P1	391257	broad.mit.edu	37	20	52491893	52491893	+	RNA	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:52491893A>G	uc010gik.2	-	1		c.356T>C				NR_002189				Homo sapiens SUMO1 pseudogene 1, mRNA (cDNA clone IMAGE:6619211).												0						CAATTCTCTGACCTTCAAAGA	0.408													5	66					0	0	0.000602	0	0	
DOK5	55816	broad.mit.edu	37	20	53171481	53171481	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:53171481C>T	uc002xwy.2	+	2	296	c.76C>T	c.(76-78)CGA>TGA	p.R26*	DOK5_uc010gin.2_5'UTR|DOK5_uc002xwz.2_5'UTR	NM_018431	NP_060901	Q9P104	DOK5_HUMAN	docking protein 5	26	PH.						insulin receptor binding			ovary(1)	1			Colorectal(105;0.202)			GATTTATCAGCGATGCTGGTT	0.373													7	65					0	0	0.001984	0	0	
AURKA	6790	broad.mit.edu	37	20	54959346	54959346	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:54959346C>T	uc002xxd.1	-	6	920	c.354G>A	c.(352-354)CAG>CAA	p.Q118Q	AURKA_uc002xxe.1_Silent_p.Q118Q|AURKA_uc002xxf.1_Silent_p.Q118Q|AURKA_uc002xxg.1_Silent_p.Q118Q|AURKA_uc002xxh.1_Silent_p.Q118Q|AURKA_uc002xxi.1_Silent_p.Q118Q|AURKA_uc002xxj.1_Silent_p.Q118Q|AURKA_uc002xxk.1_Silent_p.Q118Q|AURKA_uc010zzd.1_RNA	NM_198433	NP_940835	O14965	AURKA_HUMAN	serine/threonine protein kinase 6	118					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitosis|phosphatidylinositol-mediated signaling|regulation of protein stability|spindle organization	cytosol|nucleus|perinuclear region of cytoplasm|spindle microtubule|spindle pole centrosome	ATP binding|protein kinase binding|protein serine/threonine kinase activity			lung(3)|ovary(2)|breast(1)|large_intestine(1)|skin(1)	8			Colorectal(105;0.202)			CTTCATTTTTCTGTTTTGATG	0.299													5	74					0	0	0.001168	0	0	
BMP7	655	broad.mit.edu	37	20	55777649	55777649	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:55777649A>G	uc010gip.1	-	3	1171	c.642T>C	c.(640-642)CGT>CGC	p.R214R	BMP7_uc010giq.1_Silent_p.R214R|BMP7_uc002xyc.2_Silent_p.R214R	NM_001719	NP_001710	P18075	BMP7_HUMAN	bone morphogenetic protein 7 precursor	214					BMP signaling pathway|cartilage development|cellular response to hypoxia|epithelial to mesenchymal transition|growth|mesonephros development|negative regulation of glomerular mesangial cell proliferation|negative regulation of MAP kinase activity|negative regulation of mitosis|negative regulation of neuron differentiation|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of phosphorylation|negative regulation of striated muscle cell apoptosis|negative regulation of transcription, DNA-dependent|ossification|pathway-restricted SMAD protein phosphorylation|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|protein localization to nucleus|regulation of removal of superoxide radicals|SMAD protein signal transduction|steroid hormone mediated signaling pathway|ureteric bud development	extracellular space	cytokine activity|growth factor activity			skin(1)	1	all_lung(29;0.0133)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(4;2.49e-13)|Epithelial(14;1.74e-08)|all cancers(14;2.05e-07)			CCCAGAGGGTACGGCTGTCGA	0.622													4	29					0	0	0.001168	0	0	
PCK1	5105	broad.mit.edu	37	20	56138777	56138777	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:56138777G>A	uc002xyn.3	+	6	1118	c.955G>A	c.(955-957)GCA>ACA	p.A319T	PCK1_uc010zzm.1_Intron	NM_002591	NP_002582	P35558	PCKGC_HUMAN	cytosolic phosphoenolpyruvate carboxykinase 1	319					gluconeogenesis|glucose homeostasis|glycerol biosynthetic process from pyruvate|response to insulin stimulus	cytosol|nucleus	carboxylic acid binding|GTP binding|magnesium ion binding|manganese ion binding|phosphoenolpyruvate carboxykinase (GTP) activity			skin(1)	1	Lung NSC(12;0.000764)|all_lung(29;0.00264)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;9.88e-12)|Epithelial(14;3.41e-08)|all cancers(14;2.13e-07)			GAAGTTTGACGCACAAGGTGA	0.542													22	124					0	0	0.002780	0	0	
NPEPL1	79716	broad.mit.edu	37	20	57276144	57276144	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:57276144C>T	uc010zzs.1	+	6	847	c.752C>T	c.(751-753)GCC>GTC	p.A251V	NPEPL1_uc010zzr.1_Missense_Mutation_p.A203V|NPEPL1_uc002xzn.2_RNA|NPEPL1_uc010gjo.1_Missense_Mutation_p.A223V|NPEPL1_uc002xzp.2_Missense_Mutation_p.A139V	NM_024663	NP_078939	Q8NDH3	PEPL1_HUMAN	aminopeptidase-like 1	251					proteolysis	cytoplasm	aminopeptidase activity|manganese ion binding|metalloexopeptidase activity				0	all_lung(29;0.0175)		BRCA - Breast invasive adenocarcinoma(13;2.88e-09)|Colorectal(105;0.109)			CCAGATGGAGCCACGCAGACC	0.627													3	9					0	0	0.004672	0	0	
GNAS	2778	broad.mit.edu	37	20	57415849	57415849	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:57415849T>A	uc002xzt.2	+	1	1055	c.688T>A	c.(688-690)TCC>ACC	p.S230T	GNASAS_uc002xzs.1_Intron|GNAS_uc002xzu.3_5'Flank|GNAS_uc010gjq.2_5'Flank	NM_016592	NP_057676	P63092	GNAS2_HUMAN	GNAS complex locus NESP55	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			CCGTGACGCGTCCCCGGAGTC	0.592			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			4	13					0	0	0.001984	0	0	
GNAS	2778	broad.mit.edu	37	20	57485765	57485765	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:57485765C>T	uc002xzw.2	+	13	3280	c.2995C>T	c.(2995-2997)CGT>TGT	p.R999C	GNAS_uc002xzt.2_3'UTR|GNAS_uc010gjq.2_Missense_Mutation_p.R297C|GNAS_uc002xzx.2_Missense_Mutation_p.R297C|GNAS_uc010gjr.2_Missense_Mutation_p.R247C|GNAS_uc002xzy.2_Missense_Mutation_p.R282C|GNAS_uc002yaa.2_Missense_Mutation_p.R342C|GNAS_uc010zzt.1_Missense_Mutation_p.R357C|GNAS_uc002yab.2_RNA|GNAS_uc002yad.2_Missense_Mutation_p.R247C|GNAS_uc002yae.2_Missense_Mutation_p.R281C	NM_080425	NP_536350	P63092	GNAS2_HUMAN	GNAS complex locus XLas	356					activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			TGGAGATGGGCGTCACTACTG	0.577			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			15	62					0	0	0.004007	0	0	
TH1L	51497	broad.mit.edu	37	20	57568154	57568154	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:57568154C>T	uc002yag.2	+	11	1385	c.1358C>T	c.(1357-1359)GCG>GTG	p.A453V	TH1L_uc002yaf.1_RNA|TH1L_uc002yah.2_Missense_Mutation_p.A453V	NM_198976	NP_945327	Q8IXH7	NELFD_HUMAN	TH1-like protein	453					negative regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3	all_lung(29;0.00711)		Colorectal(105;0.109)			GTCCACCTGGCGTTGCTGGAT	0.502													8	73					0	0	0.003080	0	0	
TUBB1	81027	broad.mit.edu	37	20	57599575	57599575	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:57599575G>A	uc002yak.2	+	4	1362	c.1093G>A	c.(1093-1095)GCC>ACC	p.A365T		NM_030773	NP_110400	Q9H4B7	TBB1_HUMAN	beta tubulin 1, class VI	365					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity			ovary(1)	1	all_lung(29;0.00711)		Colorectal(105;0.109)		Colchicine(DB01394)|Docetaxel(DB01248)|Paclitaxel(DB01229)|Vindesine(DB00309)	GAGCATGGCCGCCACCTTCAT	0.542													4	31					0	0	0.001984	0	0	
ZNF831	128611	broad.mit.edu	37	20	57768478	57768478	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:57768478G>A	uc002yan.2	+	1	2404	c.2404G>A	c.(2404-2406)GCC>ACC	p.A802T		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	802						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					CTGCCTGTGGGCCCAGACTGT	0.627													4	22					0	0	0.001168	0	0	
PHACTR3	116154	broad.mit.edu	37	20	58349436	58349436	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:58349436C>T	uc002yau.2	+	7	1532	c.1065C>T	c.(1063-1065)GCC>GCT	p.A355A	PHACTR3_uc002yat.2_Silent_p.A352A|PHACTR3_uc010zzw.1_Silent_p.A314A|PHACTR3_uc002yav.2_Silent_p.A314A|PHACTR3_uc002yaw.2_Silent_p.A314A|PHACTR3_uc002yax.2_Silent_p.A244A	NM_080672	NP_542403	Q96KR7	PHAR3_HUMAN	phosphatase and actin regulator 3 isoform 1	355	Potential.					nuclear matrix	actin binding|protein phosphatase inhibitor activity			ovary(2)|pancreas(1)	3	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;2.76e-09)			AGCGAACTGCCGCTAAGGAAT	0.542													21	85					0	0	0.010504	0	0	
SYCP2	10388	broad.mit.edu	37	20	58467173	58467173	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:58467173A>G	uc002yaz.2	-	23	2375	c.2236T>C	c.(2236-2238)TCA>CCA	p.S746P		NM_014258	NP_055073	Q9BX26	SYCP2_HUMAN	synaptonemal complex protein 2	746					cell division|meiotic prophase I|synaptonemal complex assembly		DNA binding			ovary(3)|lung(2)	5	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;1.19e-09)			ACATCTTTTGACAATATGTAT	0.343													16	85					0	0	0.004990	0	0	
CDH26	60437	broad.mit.edu	37	20	58562546	58562546	+	Silent	SNP	C	T	T	rs146755298		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:58562546C>T	uc002ybe.2	+	8	1176	c.876C>T	c.(874-876)GGC>GGT	p.G292G	CDH26_uc002ybf.1_5'Flank|CDH26_uc010zzy.1_RNA	NM_177980	NP_817089	Q8IXH8	CAD26_HUMAN	cadherin-like 26 isoform a	292	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|central_nervous_system(1)	4	all_lung(29;0.00963)		BRCA - Breast invasive adenocarcinoma(7;5.58e-09)			CCAGCCAGGGCGTGTTGCGTC	0.433													13	59					0	0	0.001855	0	0	
CDH26	60437	broad.mit.edu	37	20	58564055	58564055	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:58564055C>T	uc002ybe.2	+	9	1420	c.1120C>T	c.(1120-1122)CCA>TCA	p.P374S	CDH26_uc002ybf.1_5'UTR|CDH26_uc010zzy.1_RNA	NM_177980	NP_817089	Q8IXH8	CAD26_HUMAN	cadherin-like 26 isoform a	374	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|central_nervous_system(1)	4	all_lung(29;0.00963)		BRCA - Breast invasive adenocarcinoma(7;5.58e-09)			GCTTCAGCCGCCAAGGAAGGC	0.557													8	52					0	0	0.003080	0	0	
CDH4	1002	broad.mit.edu	37	20	60504690	60504690	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:60504690C>T	uc002ybn.1	+	13	2043	c.2029C>T	c.(2029-2031)CGC>TGC	p.R677C	CDH4_uc002ybp.1_Missense_Mutation_p.R603C	NM_001794	NP_001785	P55283	CADH4_HUMAN	cadherin 4, type 1 preproprotein	677	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)			ACTCAGCTTGCGCATCCTGTA	0.532													5	67					0	0	0.001168	0	0	
LSM14B	149986	broad.mit.edu	37	20	60699742	60699742	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:60699742A>G	uc010gjy.1	+	2	403	c.197A>G	c.(196-198)TAC>TGC	p.Y66C	LSM14B_uc002ybt.2_Missense_Mutation_p.Y66C|LSM14B_uc010gjx.1_Missense_Mutation_p.Y66C|LSM14B_uc002ybv.2_Missense_Mutation_p.Y66C|LSM14B_uc010gjz.1_5'UTR|LSM14B_uc010zzz.1_5'UTR	NM_144703	NP_653304	Q9BX40	LS14B_HUMAN	LSM14 homolog B	66				Y -> N (in Ref. 4; BX354437).	multicellular organismal development|regulation of translation	ribonucleoprotein complex					0	Breast(26;3.97e-09)		BRCA - Breast invasive adenocarcinoma(19;1.28e-07)			ATTTATGAGTACATCATTTTC	0.502													16	52					0	0	0.004990	0	0	
LSM14B	149986	broad.mit.edu	37	20	60704997	60704997	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:60704997A>G	uc010gjy.1	+	4	790	c.584A>G	c.(583-585)AAG>AGG	p.K195R	LSM14B_uc010gjx.1_Missense_Mutation_p.K221R|LSM14B_uc002ybv.2_Missense_Mutation_p.K195R|LSM14B_uc010gjz.1_Missense_Mutation_p.K151R|LSM14B_uc010zzz.1_Missense_Mutation_p.K115R	NM_144703	NP_653304	Q9BX40	LS14B_HUMAN	LSM14 homolog B	195					multicellular organismal development|regulation of translation	ribonucleoprotein complex					0	Breast(26;3.97e-09)		BRCA - Breast invasive adenocarcinoma(19;1.28e-07)			CCGAGCAGCAAGACGGCCAGC	0.478													7	23					0	0	0.003080	0	0	
PSMA7	5688	broad.mit.edu	37	20	60714232	60714232	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:60714232G>A	uc002ybx.1	-	4	485	c.370C>T	c.(370-372)CGC>TGC	p.R124C	PSMA7_uc002yby.1_RNA	NM_002792	NP_002783	O14818	PSA7_HUMAN	proteasome alpha 7 subunit	124					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex, alpha-subunit complex	identical protein binding|threonine-type endopeptidase activity				0	Breast(26;3.97e-09)		BRCA - Breast invasive adenocarcinoma(19;1.28e-07)			AACGGCCTGCGCCCATTGCTC	0.502													16	81					0	0	0.004990	0	0	
CABLES2	81928	broad.mit.edu	37	20	60966415	60966415	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:60966415G>A	uc002ycv.2	-	9	1193	c.1186C>T	c.(1186-1188)CAG>TAG	p.Q396*		NM_031215	NP_112492	Q9BTV7	CABL2_HUMAN	Cdk5 and Abl enzyme substrate 2	396					cell cycle|cell division|regulation of cell cycle|regulation of cell division		cyclin-dependent protein kinase regulator activity			pancreas(1)	1	Breast(26;2.05e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)			AGCTTGCCCTGCAGGACCAGC	0.632													20	86					0	0	0.002299	0	0	
SLCO4A1	28231	broad.mit.edu	37	20	61297900	61297900	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:61297900C>T	uc002ydb.1	+	7	1650	c.1445C>T	c.(1444-1446)GCG>GTG	p.A482V	SLCO4A1_uc002ydc.1_RNA|LOC100127888_uc002ydd.2_RNA|SLCO4A1_uc002yde.1_5'Flank	NM_016354	NP_057438	Q96BD0	SO4A1_HUMAN	solute carrier organic anion transporter family	482	Extracellular (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(1)	1	Breast(26;3.65e-08)		BRCA - Breast invasive adenocarcinoma(19;2.33e-06)			GTGCCCATGGCGGGCGTCACA	0.677													12	77					0	0	0.003163	0	0	
SLC17A9	63910	broad.mit.edu	37	20	61593988	61593988	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:61593988C>T	uc002yea.3	+	5	694	c.510C>T	c.(508-510)ACC>ACT	p.T170T	SLC17A9_uc002ydz.3_Silent_p.T164T|SLC17A9_uc011aap.1_Silent_p.T190T	NM_022082	NP_071365	Q9BYT1	S17A9_HUMAN	vesicular nucleotide transporter SLC17A9	170	Helical; (Potential).				exocytosis|transmembrane transport	integral to membrane	transporter activity			ovary(1)|skin(1)	2						CGCTGCTGACCGGGGCGGTGG	0.652													8	40					0	0	0.001855	0	0	
YTHDF1	54915	broad.mit.edu	37	20	61833667	61833667	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:61833667C>T	uc002yeh.2	-	4	1919	c.1625G>A	c.(1624-1626)CGC>CAC	p.R542H	YTHDF1_uc011aaq.1_Missense_Mutation_p.R492H	NM_017798	NP_060268	Q9BYJ9	YTHD1_HUMAN	YTH domain family, member 1	542										ovary(2)	2						CTCCTCCTGGCGCTTCTCGTA	0.552													13	80					0	0	0.008871	0	0	
CHRNA4	1137	broad.mit.edu	37	20	61981756	61981756	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:61981756C>T	uc002yes.2	-	5	1185	c.1007G>A	c.(1006-1008)CGC>CAC	p.R336H	CHRNA4_uc002yet.1_Missense_Mutation_p.R160H|CHRNA4_uc011aaw.1_RNA|CHRNA4_uc010gke.1_Missense_Mutation_p.R265H|CHRNA4_uc002yev.1_Missense_Mutation_p.R160H|CHRNA4_uc010gkf.1_Missense_Mutation_p.R160H	NM_000744	NP_000735	P43681	ACHA4_HUMAN	cholinergic receptor, nicotinic, alpha 4 subunit	336	Cytoplasmic (Potential).				B cell activation|behavioral response to nicotine|calcium ion transport|cognition|DNA repair|membrane depolarization|regulation of action potential|regulation of dopamine secretion|regulation of inhibitory postsynaptic membrane potential|response to hypoxia|response to oxidative stress|sensory perception of pain|synaptic transmission, cholinergic	cell junction|dendrite|external side of plasma membrane|membrane fraction|neuronal cell body|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			central_nervous_system(1)|skin(1)	2	all_cancers(38;1.71e-10)				Nicotine(DB00184)|Varenicline(DB01273)	GGTGTGCGTGCGTGGCGAGCG	0.612													16	80					0	0	0.004990	0	0	
PTK6	5753	broad.mit.edu	37	20	62162144	62162144	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:62162144G>A	uc002yfg.2	-	6	1009	c.969C>T	c.(967-969)AAC>AAT	p.N323N	PTK6_uc011aay.1_Silent_p.N222N|PTK6_uc011aaz.1_Silent_p.N85N	NM_005975	NP_005966	Q13882	PTK6_HUMAN	PTK6 protein tyrosine kinase 6	323	Protein kinase.					cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity			stomach(1)|kidney(1)	2	all_cancers(38;2.51e-11)		Epithelial(9;1.5e-08)|all cancers(9;8.67e-08)|BRCA - Breast invasive adenocarcinoma(10;6.43e-06)			TGCAGAGGGTGTTTTCCCCGA	0.488													11	48					0	0	0.001368	0	0	
SRMS	6725	broad.mit.edu	37	20	62174716	62174716	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:62174716G>A	uc002yfi.1	-	3	637	c.596C>T	c.(595-597)GCC>GTC	p.A199V		NM_080823	NP_543013	Q9H3Y6	SRMS_HUMAN	src-related kinase lacking C-terminal regulatory	199	SH2.						ATP binding|non-membrane spanning protein tyrosine kinase activity			stomach(1)|lung(1)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;9.69e-09)|all cancers(9;5.84e-08)|BRCA - Breast invasive adenocarcinoma(10;3.63e-06)			CTTCCAGTTGGCCTTGTAGTA	0.652													10	52					0	0	0.008291	0	0	
PRIC285	85441	broad.mit.edu	37	20	62198324	62198324	+	Missense_Mutation	SNP	G	A	A	rs79249043	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:62198324G>A	uc002yfm.2	-	7	3279	c.2387C>T	c.(2386-2388)GCG>GTG	p.A796V	PRIC285_uc002yfl.1_Missense_Mutation_p.A227V	NM_001037335	NP_001032412	Q9BYK8	PR285_HUMAN	PPAR-alpha interacting complex protein 285	796					cellular lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|helicase activity|ribonuclease activity|RNA binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;1.27e-08)|all cancers(9;7.32e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)			CAGCCAGGACGCCATGGACAT	0.677													7	51					0	0	0.003080	0	0	
RTEL1	51750	broad.mit.edu	37	20	62319289	62319289	+	Splice_Site	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:62319289G>A	uc002yfu.1	+	18	1825	c.1482_splice	c.e18-1	p.I494_splice	RTEL1_uc011abc.1_Splice_Site|RTEL1_uc002yft.1_Splice_Site_p.I494_splice|RTEL1_uc011abd.1_Splice_Site_p.I518_splice|RTEL1_uc011abe.1_Splice_Site_p.I271_splice|RTEL1_uc002yfw.2_Splice_Site|RTEL1_uc002yfx.1_5'Flank	NM_016434	NP_057518	Q9NZ71	RTEL1_HUMAN	regulator of telomere elongation helicase 1						DNA repair|regulation of double-strand break repair via homologous recombination|telomere maintenance	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|iron-sulfur cluster binding|metal ion binding				0	all_cancers(38;6.47e-12)|all_epithelial(29;3.75e-13)		Epithelial(9;1.25e-09)|all cancers(9;5.13e-09)|BRCA - Breast invasive adenocarcinoma(10;7.26e-05)|OV - Ovarian serous cystadenocarcinoma(5;0.00223)|Colorectal(105;0.107)			GCCACGCTCAGCCCTTTCCCA	0.662													4	27					0	0	0.001984	0	0	
ZGPAT	84619	broad.mit.edu	37	20	62366007	62366007	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:62366007G>A	uc002ygk.2	+	5	1060	c.882G>A	c.(880-882)TCG>TCA	p.S294S	ZGPAT_uc002ygi.2_Intron|ZGPAT_uc002ygj.2_Intron|ZGPAT_uc010gkk.1_Intron|ZGPAT_uc010gkl.1_Intron|ZGPAT_uc002ygm.2_Intron|ZGPAT_uc002ygn.3_Intron|LIME1_uc011abi.1_5'Flank|LIME1_uc002ygp.3_5'Flank	NM_032527	NP_115916	Q8N5A5	ZGPAT_HUMAN	zinc finger, CCCH-type with G patch domain	294					negative regulation of epidermal growth factor receptor activity|negative regulation of transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_cancers(38;1.13e-12)|all_epithelial(29;2.64e-14)|Lung NSC(23;4.79e-10)|all_lung(23;1.7e-09)					TGGTGGGGTCGGACGCCGTGG	0.617													10	87					0	0	0.006214	0	0	
DNAJC5	80331	broad.mit.edu	37	20	62560765	62560765	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:62560765G>A	uc002yhf.2	+	3	378	c.208G>A	c.(208-210)GCC>ACC	p.A70T	DNAJC5_uc002yhg.1_Missense_Mutation_p.A70T|DNAJC5_uc002yhh.2_RNA	NM_025219	NP_079495	Q9H3Z4	DNJC5_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 5	70	J.				neurotransmitter secretion|protein folding	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|melanosome|plasma membrane	heat shock protein binding|unfolded protein binding			pancreas(1)	1	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					CCTCACGGACGCCACAAAAAG	0.557													14	52					0	0	0.001882	0	0	
DNAJC5	80331	broad.mit.edu	37	20	62560817	62560817	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:62560817C>T	uc002yhf.2	+	3	430	c.260C>T	c.(259-261)GCC>GTC	p.A87V	DNAJC5_uc002yhg.1_Missense_Mutation_p.A87V|DNAJC5_uc002yhh.2_RNA	NM_025219	NP_079495	Q9H3Z4	DNJC5_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 5	87					neurotransmitter secretion|protein folding	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|melanosome|plasma membrane	heat shock protein binding|unfolded protein binding			pancreas(1)	1	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					CTCTACGTGGCCGAGCAGTTT	0.597													15	63					0	0	0.003163	0	0	
PRPF6	24148	broad.mit.edu	37	20	62657327	62657327	+	Silent	SNP	C	T	T	rs151332876	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:62657327C>T	uc002yho.2	+	15	2112	c.1944C>T	c.(1942-1944)GCC>GCT	p.A648A	PRPF6_uc002yhp.2_Intron	NM_012469	NP_036601	O94906	PRP6_HUMAN	PRP6 pre-mRNA processing factor 6 homolog	648	HAT 6.				assembly of spliceosomal tri-snRNP|positive regulation of transcription from RNA polymerase II promoter|spliceosome assembly	catalytic step 2 spliceosome|nucleoplasm|U4/U6 snRNP|U4/U6 x U5 tri-snRNP complex|U5 snRNP	androgen receptor binding|ribonucleoprotein binding|transcription coactivator activity			ovary(2)	2	all_cancers(38;6.47e-12)|all_epithelial(29;1.26e-13)|Lung NSC(23;9.37e-10)|all_lung(23;3.23e-09)					GGCTGGCAGCCGTGAAGCTGG	0.647													36	194					0	0	0.007835	0	0	
SOX18	54345	broad.mit.edu	37	20	62680254	62680254	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:62680254C>T	uc002yhs.2	-	2	530	c.420G>A	c.(418-420)CGG>CGA	p.R140R		NM_018419	NP_060889	P35713	SOX18_HUMAN	SRY-box 18	140	HMG box.				angiogenesis|blood vessel endothelial cell migration|endocardial cell differentiation|endocardium formation|establishment of endothelial barrier|heart looping|lymphangiogenesis|lymphatic endothelial cell differentiation|negative regulation of transcription, DNA-dependent|outflow tract morphogenesis|positive regulation of transcription from RNA polymerase II promoter|vasculogenesis	nucleus	transcription regulatory region DNA binding				0	all_cancers(38;3.45e-11)|all_epithelial(29;9.12e-13)|Lung NSC(23;2e-09)|all_lung(23;6.77e-09)					GCACGCGCAGCCGTTCGGCTT	0.716													4	3					0	0	0.009096	0	0	
TCEA2	6919	broad.mit.edu	37	20	62703233	62703233	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:62703233G>A	uc011abs.1	+	9	1486	c.830G>A	c.(829-831)CGC>CAC	p.R277H	TCEA2_uc011abr.1_Missense_Mutation_p.R250H|TCEA2_uc010gks.2_Missense_Mutation_p.R278H	NM_003195	NP_003186	Q15560	TCEA2_HUMAN	transcription elongation factor A protein 2	277	TFIIS-type.				regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription elongation, DNA-dependent	transcription elongation factor complex	DNA binding|protein binding|translation elongation factor activity|zinc ion binding				0	all_cancers(38;3.45e-11)|all_epithelial(29;9.12e-13)|Lung NSC(23;2e-09)|all_lung(23;6.77e-09)					GTGCAGACCCGCAGCTCTGAT	0.632													9	30					0	0	0.004482	0	0	
OPRL1	4987	broad.mit.edu	37	20	62729746	62729746	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:62729746G>A	uc002yic.2	+	5	1109	c.707G>A	c.(706-708)AGC>AAC	p.S236N	OPRL1_uc002yid.2_Missense_Mutation_p.S236N|OPRL1_uc002yif.3_Missense_Mutation_p.S231N	NM_182647	NP_872588	P41146	OPRX_HUMAN	opiate receptor-like 1	236	Helical; Name=5; (Potential).				elevation of cytosolic calcium ion concentration|inhibition of adenylate cyclase activity by G-protein signaling pathway|sensory perception	integral to plasma membrane	protein binding|X-opioid receptor activity			central_nervous_system(1)|skin(1)	2	all_cancers(38;4.74e-11)|all_epithelial(29;1.33e-12)|Lung NSC(23;3.27e-09)|all_lung(23;1.02e-08)					GTCTGCTACAGCCTCATGATC	0.622													6	85					0	0	0.003080	0	0	
MYT1	4661	broad.mit.edu	37	20	62839458	62839458	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:62839458G>A	uc002yii.2	+	7	1273	c.909G>A	c.(907-909)GAG>GAA	p.E303E	MYT1_uc002yih.2_Intron|MYT1_uc002yij.2_5'UTR	NM_004535	NP_004526	Q01538	MYT1_HUMAN	myelin transcription factor 1	303	Glu-rich.				cell differentiation|nervous system development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)					aggaagaggaggaggaggagg	0.269													13	48					0	0	0.001855	0	0	
MYT1	4661	broad.mit.edu	37	20	62850293	62850293	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:62850293G>A	uc002yii.2	+	12	2240	c.1876G>A	c.(1876-1878)GCA>ACA	p.A626T	MYT1_uc002yih.2_Missense_Mutation_p.A328T|MYT1_uc002yij.2_Missense_Mutation_p.A285T	NM_004535	NP_004526	Q01538	MYT1_HUMAN	myelin transcription factor 1	626					cell differentiation|nervous system development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)					CGCCGAGGCTGCACACATGGC	0.602													8	33					0	0	0.001855	0	0	
Unknown	0	broad.mit.edu	37	21	9768984	9768984	+	RNA	SNP	T	C	C	rs147966096	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:9768984T>C	uc011abu.1	+	10		c.959T>C								Homo sapiens, clone IMAGE:4720764, mRNA.																		CTTAAGGACGTTAAAATTGTT	0.318													10	61					0	0	0.006214	0	0	
TPTE	7179	broad.mit.edu	37	21	10934961	10934961	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:10934961G>T	uc002yip.1	-	15	1200	c.832C>A	c.(832-834)CAC>AAC	p.H278N	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.H260N|TPTE_uc002yir.1_Missense_Mutation_p.H240N|TPTE_uc010gkv.1_Missense_Mutation_p.H140N	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	278	Phosphatase tensin-type.				signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		ACTCGATAGTGGTTTCGGTGT	0.348													12	133					0.00010058	0.000105469	0.001368	1	0	
BAGE2	85319	broad.mit.edu	37	21	11049593	11049593	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:11049593G>A	uc002yit.1	-	4	516	c.308C>T	c.(307-309)GCG>GTG	p.A103V		NM_182482	NP_872288			B melanoma antigen family, member 2 precursor												0			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		CCGGGCTGTCGCACACTGCAC	0.383													13	210					0	0	0.004990	0	0	
POTED	317754	broad.mit.edu	37	21	14982927	14982927	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:14982927C>T	uc002yjb.1	+	1	430	c.378C>T	c.(376-378)AGC>AGT	p.S126S		NM_174981	NP_778146	Q86YR6	POTED_HUMAN	pote protein	126						plasma membrane				ovary(3)|skin(3)	6						ACGACCACAGCGCCTTCATGG	0.597													9	58					0	0	0.004482	0	0	
LIPI	149998	broad.mit.edu	37	21	15561632	15561632	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:15561632T>C	uc002yjm.2	-	2	228	c.218A>G	c.(217-219)AAC>AGC	p.N73S	LIPI_uc010gkw.1_Missense_Mutation_p.N6S	NM_198996	NP_945347	Q6XZB0	LIPI_HUMAN	lipase, member I	52					lipid catabolic process	extracellular region|extracellular space|membrane|plasma membrane	heparin binding|phospholipase activity			ovary(2)	2				Epithelial(23;0.000155)|COAD - Colon adenocarcinoma(22;0.0015)|Colorectal(24;0.00693)|Lung(58;0.166)		ACAGTTTAGGTTGTTCCTTGT	0.368													6	52					0	0	0.001168	0	0	
TMPRSS15	5651	broad.mit.edu	37	21	19713822	19713822	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:19713822G>A	uc002ykw.2	-	13	1503	c.1472C>T	c.(1471-1473)GCG>GTG	p.A491V		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	491	Extracellular (Potential).|MAM.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						GTCATCCAACGCAATATCACT	0.388													28	48					0	0	0.004656	0	0	
ADAMTS5	11096	broad.mit.edu	37	21	28296541	28296541	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:28296541G>A	uc002ymg.2	-	8	3353	c.2624C>T	c.(2623-2625)TCG>TTG	p.S875L		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	875	TSP type-1 2.				proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						CTGCGGCTGCGAAGTGTGTGA	0.527													11	19					0	0	0.001855	0	0	
C21orf7	56911	broad.mit.edu	37	21	30532270	30532270	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:30532270G>A	uc002yne.2	+	7	712	c.441G>A	c.(439-441)CCG>CCA	p.P147P	C21orf7_uc011acr.1_RNA|C21orf7_uc002ynd.2_RNA|C21orf7_uc010gln.2_RNA|C21orf7_uc002ynf.2_Silent_p.P147P|C21orf7_uc010glo.2_5'UTR|C21orf7_uc002yng.2_Silent_p.P47P|C21orf7_uc010glp.2_RNA	NM_020152	NP_064537	P57077	TAK1L_HUMAN	chromosome 21 open reading frame 7	147						cytosol|nucleus	protein binding			ovary(2)	2				Colorectal(56;0.248)		AGCCCCTGCCGCCTTGTCATG	0.433													9	87					0	0	0.004482	0	0	
KRTAP24-1	643803	broad.mit.edu	37	21	31654991	31654991	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:31654991T>C	uc002ynv.2	-	1	286	c.260A>G	c.(259-261)GAC>GGC	p.D87G		NM_001085455	NP_001078924	Q3LI83	KR241_HUMAN	keratin associated protein 24-1	87						keratin filament	structural molecule activity				0						GTTTGACGGGTCACAACCAGT	0.448													3	28					0	0	0.000602	0	0	
KRTAP13-1	140258	broad.mit.edu	37	21	31768922	31768922	+	Nonstop_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:31768922G>T	uc002yoa.2	+	1	531	c.518G>T	c.(517-519)TGA>TTA	p.*173L		NM_181599	NP_853630	Q8IUC0	KR131_HUMAN	keratin associated protein 13-1	173						intermediate filament				ovary(1)	1						TTCTACTATTGATCATCTTGT	0.433													9	13					6.40141e-05	6.72605e-05	0.000978	1	0	
TIAM1	7074	broad.mit.edu	37	21	32526578	32526578	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:32526578C>T	uc002yow.1	-	18	3630	c.3158G>A	c.(3157-3159)CGC>CAC	p.R1053H	TIAM1_uc011adk.1_Missense_Mutation_p.R1053H|TIAM1_uc011adl.1_Missense_Mutation_p.R993H	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	1053	DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						CACGTAGGTGCGCTCCGTCTC	0.547													12	16					0	0	0.001368	0	0	
URB1	9875	broad.mit.edu	37	21	33746004	33746004	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:33746004C>T	uc002ypn.2	-	7	921	c.828G>A	c.(826-828)TCG>TCA	p.S276S		NM_014825	NP_055640	O60287	NPA1P_HUMAN	URB1 ribosome biogenesis 1 homolog	276						nucleolus	protein binding				0						AGTTGTACAGCGATGCTATGT	0.388													5	4					0	0	0.001168	0	0	
IL10RB	3588	broad.mit.edu	37	21	34640721	34640721	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:34640721C>T	uc002yrk.1	+	2	171	c.72C>T	c.(70-72)CCC>CCT	p.P24P	IL10RB_uc002yrh.1_Silent_p.P94P|IL10RB_uc002yri.1_Intron|uc002yrj.1_5'Flank|IL10RB_uc002yrl.1_Silent_p.P26P	NM_000628	NP_000619	Q08334	I10R2_HUMAN	interleukin 10 receptor, beta precursor	24	Extracellular (Potential).				immune response|inflammatory response	interleukin-28 receptor complex	protein binding|receptor activity				0						TACCACCTCCCGAAAATGTCA	0.403													11	14					0	0	0.008291	0	0	
TTC3	7267	broad.mit.edu	37	21	38510956	38510956	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:38510956A>T	uc002yvz.2	+	19	1706	c.1601A>T	c.(1600-1602)AAC>ATC	p.N534I	TTC3_uc011aee.1_Missense_Mutation_p.N224I|TTC3_uc002ywa.2_Missense_Mutation_p.N534I|TTC3_uc002ywb.2_Missense_Mutation_p.N534I|TTC3_uc010gnf.2_Missense_Mutation_p.N299I|TTC3_uc002ywc.2_Missense_Mutation_p.N224I|TTC3_uc011aed.1_Missense_Mutation_p.N224I|TTC3_uc010gne.1_Missense_Mutation_p.N534I	NM_001001894	NP_001001894	P53804	TTC3_HUMAN	tetratricopeptide repeat domain 3	534					protein K48-linked ubiquitination|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(3)|ovary(2)|lung(2)|breast(2)	9		Myeloproliferative disorder(46;0.0412)				GCCATGATTAACTATGTTTTG	0.353													8	83					0	0	0.003080	0	0	
DYRK1A	1859	broad.mit.edu	37	21	38884778	38884778	+	Nonsense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:38884778G>T	uc002ywk.2	+	11	2311	c.2236G>T	c.(2236-2238)GAA>TAA	p.E746*	DYRK1A_uc002ywi.2_3'UTR|DYRK1A_uc002ywj.2_Nonsense_Mutation_p.E737*|DYRK1A_uc002ywl.2_3'UTR|DYRK1A_uc002ywm.2_3'UTR|DYRK1A_uc011aei.1_Nonsense_Mutation_p.E507*	NM_001396	NP_001387	Q13627	DYR1A_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	746					nervous system development|peptidyl-tyrosine phosphorylation|protein autophosphorylation	nuclear speck	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding|protein self-association|protein serine/threonine kinase activity			ovary(2)|lung(1)|breast(1)	4						GGCTGATAGAGAAGAGTCCCC	0.438													12	55					6.40141e-05	6.72605e-05	0.000978	1	0	
ERG	2078	broad.mit.edu	37	21	39755694	39755694	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:39755694T>C	uc010gnw.2	-	12	1387	c.1092A>G	c.(1090-1092)AAA>AAG	p.K364K	ERG_uc002yxa.2_Silent_p.K357K|ERG_uc011aek.1_Silent_p.K265K|ERG_uc010gnv.2_Silent_p.K241K|ERG_uc010gnx.2_Silent_p.K340K|ERG_uc011ael.1_Silent_p.K364K|ERG_uc002yxb.2_Silent_p.K340K	NM_001136155	NP_001129627	P11308	ERG_HUMAN	ets-related isoform 4	364	ETS.				cell proliferation|multicellular organismal development|protein phosphorylation	cytoplasm|nucleus|ribonucleoprotein complex	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity		TMPRSS2/ERG(2499)|FUS/ERG(163)|EWSR1/ERG(162)	prostate(2499)|bone(167)|haematopoietic_and_lymphoid_tissue(153)|soft_tissue(5)|lung(2)|skin(1)|ovary(1)	2828		Prostate(19;3.6e-06)				TCATGTTGGGTTTGCTCTTCC	0.577													3	45					0	0	0.000602	0	0	
CSTB	1476	broad.mit.edu	37	21	45194175	45194175	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:45194175C>T	uc002zdr.2	-	3	314	c.205G>A	c.(205-207)GTG>ATG	p.V69M		NM_000100	NP_000091	P04080	CYTB_HUMAN	cystatin B	69						cytoplasm|nucleolus	cysteine-type endopeptidase inhibitor activity|protease binding				0				STAD - Stomach adenocarcinoma(101;0.168)		GATTGGAACACTCGCAGGTGT	0.537													16	23					0	0	0.007413	0	0	
AGPAT3	56894	broad.mit.edu	37	21	45401010	45401010	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:45401010C>T	uc002zdv.2	+	9	1206	c.984C>T	c.(982-984)GGC>GGT	p.G328G	AGPAT3_uc002zdw.2_Silent_p.G328G|AGPAT3_uc002zdx.2_Silent_p.G415G|AGPAT3_uc002zdy.2_Silent_p.G266G	NM_020132	NP_064517	Q9NRZ7	PLCC_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 3	328	Helical; (Potential).				phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|plasma membrane	1-acylglycerol-3-phosphate O-acyltransferase activity				0				STAD - Stomach adenocarcinoma(101;0.18)|Colorectal(79;0.24)		TTGTCTTGGGCGTCTTTGCCA	0.577													5	28					0	0	0.000602	0	0	
TRAPPC10	7109	broad.mit.edu	37	21	45479056	45479056	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:45479056G>A	uc002zea.2	+	6	920	c.751G>A	c.(751-753)GCC>ACC	p.A251T	TRAPPC10_uc010gpo.2_5'UTR|TRAPPC10_uc002zdz.2_Missense_Mutation_p.A251T	NM_003274	NP_003265	P48553	TPC10_HUMAN	trafficking protein particle complex 10	251					vesicle-mediated transport	Golgi apparatus|integral to membrane	binding|sodium ion transmembrane transporter activity			ovary(1)|skin(1)	2						CGAACTGGACGCCCTCTTCTC	0.507													13	20					0	0	0.001855	0	0	
PWP2	5822	broad.mit.edu	37	21	45534069	45534069	+	Missense_Mutation	SNP	C	T	T	rs151259638		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:45534069C>T	uc002zeb.2	+	4	326	c.236C>T	c.(235-237)GCG>GTG	p.A79V		NM_005049	NP_005040	Q15269	PWP2_HUMAN	PWP2 periodic tryptophan protein homolog	79	WD 2.					cytoplasm|nucleolus	signal transducer activity			pancreas(1)	1				STAD - Stomach adenocarcinoma(101;0.172)|Colorectal(79;0.2)		GGGGGCGATGCGCTGCTGGTC	0.617											OREG0026247	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	18					0	0	0.002450	0	0	
PFKL	5211	broad.mit.edu	37	21	45738404	45738404	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:45738404G>A	uc002zel.2	+	10	1047	c.988G>A	c.(988-990)GAC>AAC	p.D330N	PFKL_uc002zek.2_Missense_Mutation_p.D377N|PFKL_uc002zem.2_5'Flank|PFKL_uc002zen.2_5'Flank	NM_002626	NP_002617	P17858	K6PL_HUMAN	liver phosphofructokinase	330					fructose 6-phosphate metabolic process|glycolysis|protein oligomerization	6-phosphofructokinase complex	6-phosphofructokinase activity|ATP binding|fructose-6-phosphate binding|identical protein binding|kinase binding|metal ion binding				0				Colorectal(79;0.0811)		AGCCACGCCTGACACGCCGGC	0.662													4	7					0	0	0.009096	0	0	
PFKL	5211	broad.mit.edu	37	21	45741708	45741708	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:45741708C>T	uc002zel.2	+	13	1347	c.1288C>T	c.(1288-1290)CAC>TAC	p.H430Y	PFKL_uc002zek.2_Missense_Mutation_p.H477Y|PFKL_uc002zem.2_Missense_Mutation_p.H17Y|PFKL_uc002zen.2_Missense_Mutation_p.H17Y	NM_002626	NP_002617	P17858	K6PL_HUMAN	liver phosphofructokinase	430					fructose 6-phosphate metabolic process|glycolysis|protein oligomerization	6-phosphofructokinase complex	6-phosphofructokinase activity|ATP binding|fructose-6-phosphate binding|identical protein binding|kinase binding|metal ion binding				0				Colorectal(79;0.0811)		CTCCCATGGACACACAGTATA	0.637													5	14					0	0	0.000978	0	0	
PFKL	5211	broad.mit.edu	37	21	45743770	45743770	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:45743770G>A	uc002zel.2	+	16	1678	c.1619G>A	c.(1618-1620)GGC>GAC	p.G540D	PFKL_uc002zek.2_Missense_Mutation_p.G587D|PFKL_uc002zem.2_Missense_Mutation_p.G127D|PFKL_uc002zen.2_Missense_Mutation_p.G127D	NM_002626	NP_002617	P17858	K6PL_HUMAN	liver phosphofructokinase	540					fructose 6-phosphate metabolic process|glycolysis|protein oligomerization	6-phosphofructokinase complex	6-phosphofructokinase activity|ATP binding|fructose-6-phosphate binding|identical protein binding|kinase binding|metal ion binding				0				Colorectal(79;0.0811)		TTCAGCCTGGGCTCCGACACT	0.657													4	12					0	0	0.009096	0	0	
TRPM2	7226	broad.mit.edu	37	21	45786763	45786763	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:45786763C>T	uc002zet.1	+	5	763	c.550C>T	c.(550-552)CCG>TCG	p.P184S	TRPM2_uc002zeu.1_Missense_Mutation_p.P184S|TRPM2_uc002zew.1_Missense_Mutation_p.P184S|TRPM2_uc010gpt.1_Missense_Mutation_p.P184S|TRPM2_uc002zex.1_5'Flank	NM_003307	NP_003298	O94759	TRPM2_HUMAN	transient receptor potential cation channel,	184	Cytoplasmic (Potential).					integral to plasma membrane	ADP-ribose diphosphatase activity|calcium channel activity|sodium channel activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						CAACATGAAGCCGCGGCTGAA	0.632													3	18					0	0	0.004672	0	0	
POFUT2	23275	broad.mit.edu	37	21	46687543	46687543	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:46687543G>A	uc002zhc.2	-	8	1123	c.1098C>T	c.(1096-1098)GGC>GGT	p.G366G	POFUT2_uc002zha.2_RNA|POFUT2_uc002zhb.2_RNA|POFUT2_uc002zhd.2_Silent_p.G366G	NM_133635	NP_598368	Q9Y2G5	OFUT2_HUMAN	protein O-fucosyltransferase 2 isoform C	366					fucose metabolic process	endoplasmic reticulum	peptide-O-fucosyltransferase activity				0				Colorectal(79;0.243)		TAATCGCAACGCCTCCGTCCT	0.552													46	70					0	0	0.003610	0	0	
POFUT2	23275	broad.mit.edu	37	21	46705800	46705800	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:46705800G>A	uc002zhc.2	-	2	200	c.175C>T	c.(175-177)CGC>TGC	p.R59C	POFUT2_uc002zhb.2_RNA|POFUT2_uc002zhd.2_Missense_Mutation_p.R59C|POFUT2_uc011afp.1_Missense_Mutation_p.R59C|POFUT2_uc011afq.1_Missense_Mutation_p.R59C|LOC642852_uc002zhf.2_5'Flank	NM_133635	NP_598368	Q9Y2G5	OFUT2_HUMAN	protein O-fucosyltransferase 2 isoform C	59					fucose metabolic process	endoplasmic reticulum	peptide-O-fucosyltransferase activity				0				Colorectal(79;0.243)		ACATCCCTGCGCAGGTTGAAG	0.557													7	47					0	0	0.006214	0	0	
COL6A2	1292	broad.mit.edu	37	21	47545767	47545767	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:47545767C>T	uc002zia.1	+	26	2120	c.2038C>T	c.(2038-2040)CGT>TGT	p.R680C	COL6A2_uc002zhy.1_Missense_Mutation_p.R680C|COL6A2_uc002zhz.1_Missense_Mutation_p.R680C|COL6A2_uc002zib.1_Missense_Mutation_p.R86C|COL6A2_uc002zic.1_5'Flank	NM_001849	NP_001840	P12110	CO6A2_HUMAN	alpha 2 type VI collagen isoform 2C2 precursor	680	VWFA 2.|Nonhelical region.				axon guidance|cell-cell adhesion|extracellular matrix organization|protein heterotrimerization	collagen|extracellular space|protein complex	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(7)|ovary(1)	8	Breast(49;0.245)			Colorectal(79;0.0303)|READ - Rectum adenocarcinoma(84;0.0649)		GGACGACGAACGTATCGACTC	0.627													7	14					0	0	0.003080	0	0	
MCM3AP	8888	broad.mit.edu	37	21	47665034	47665034	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:47665034G>A	uc002zir.1	-	23	4761	c.4725C>T	c.(4723-4725)TAC>TAT	p.Y1575Y	MCM3APAS_uc002zim.2_Intron|MCM3APAS_uc002zin.2_Intron|MCM3AP_uc002zio.1_Silent_p.Y70Y|MCM3AP_uc002zip.1_Silent_p.Y316Y|MCM3AP_uc002ziq.1_Silent_p.Y502Y|MCM3APAS_uc002zis.1_Intron	NM_003906	NP_003897	O60318	MCM3A_HUMAN	minichromosome maintenance complex component 3	1575					DNA replication|protein import into nucleus	cytosol|nucleus	DNA binding|nucleotide binding			large_intestine(2)|lung(1)|ovary(1)|skin(1)	5	Breast(49;0.112)					CGTCTTCGACGTACTGAATGA	0.547													4	24					0	0	0.001168	0	0	
MCM3AP	8888	broad.mit.edu	37	21	47671503	47671503	+	Silent	SNP	C	T	T	rs149634851	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:47671503C>T	uc002zir.1	-	20	4266	c.4230G>A	c.(4228-4230)TCG>TCA	p.S1410S	MCM3APAS_uc002zim.2_RNA|MCM3APAS_uc002zin.2_3'UTR|MCM3AP_uc002zip.1_Silent_p.S151S|MCM3AP_uc002ziq.1_Silent_p.S337S|MCM3APAS_uc002zis.1_RNA	NM_003906	NP_003897	O60318	MCM3A_HUMAN	minichromosome maintenance complex component 3	1410					DNA replication|protein import into nucleus	cytosol|nucleus	DNA binding|nucleotide binding			large_intestine(2)|lung(1)|ovary(1)|skin(1)	5	Breast(49;0.112)					AGTTGAAAAGCGAAAGCGTCT	0.398													5	45					0	0	0.001168	0	0	
PCNT	5116	broad.mit.edu	37	21	47832880	47832880	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:47832880C>T	uc002zji.3	+	29	6231	c.6124C>T	c.(6124-6126)CGC>TGC	p.R2042C	PCNT_uc002zjj.2_Missense_Mutation_p.R1924C	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	2042					cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					AAATGAAATGCGCCTGAGTCT	0.642													9	19					0	0	0.006214	0	0	
DIP2A	23181	broad.mit.edu	37	21	47976004	47976004	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:47976004G>T	uc002zjo.2	+	29	3681	c.3498G>T	c.(3496-3498)AAG>AAT	p.K1166N	DIP2A_uc011afy.1_Missense_Mutation_p.K1102N|DIP2A_uc011afz.1_Missense_Mutation_p.K1162N|DIP2A_uc002zjr.2_Missense_Mutation_p.K133N	NM_015151	NP_055966	Q14689	DIP2A_HUMAN	disco-interacting protein 2A isoform a	1166					multicellular organismal development	nucleus	catalytic activity|transcription factor binding			ovary(2)	2	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)		CGGGAGTGAAGGTAGGTCCTC	0.483													26	64					1.38854e-25	1.52398e-25	0.008361	1	0	
DIP2A	23181	broad.mit.edu	37	21	47978163	47978163	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:47978163C>T	uc002zjo.2	+	32	4009	c.3826C>T	c.(3826-3828)CGC>TGC	p.R1276C	DIP2A_uc011afz.1_Missense_Mutation_p.R1272C|DIP2A_uc002zjr.2_Missense_Mutation_p.R243C	NM_015151	NP_055966	Q14689	DIP2A_HUMAN	disco-interacting protein 2A isoform a	1276					multicellular organismal development	nucleus	catalytic activity|transcription factor binding			ovary(2)	2	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)		GTCATGTGTGCGCACGTGCAT	0.662													5	6					0	0	0.001984	0	0	
DIP2A	23181	broad.mit.edu	37	21	47986475	47986475	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:47986475C>T	uc002zjo.2	+	37	4525	c.4342C>T	c.(4342-4344)CGG>TGG	p.R1448W	DIP2A_uc011afz.1_Missense_Mutation_p.R1444W|DIP2A_uc002zjs.2_Missense_Mutation_p.R128W|DIP2A_uc002zjt.2_RNA	NM_015151	NP_055966	Q14689	DIP2A_HUMAN	disco-interacting protein 2A isoform a	1448					multicellular organismal development	nucleus	catalytic activity|transcription factor binding			ovary(2)	2	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)		GTTCACAGGGCGGCACGATGC	0.562													13	24					0	0	0.002450	0	0	
POTEH	23784	broad.mit.edu	37	22	16279297	16279297	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:16279297C>A	uc010gqp.2	-	4	978	c.926G>T	c.(925-927)GGC>GTC	p.G309V	POTEH_uc002zlg.1_RNA|POTEH_uc002zlh.1_Missense_Mutation_p.G28V|POTEH_uc002zlj.1_Missense_Mutation_p.G144V	NM_001136213	NP_001129685	Q6S545	POTEH_HUMAN	ANKRD26-like family C, member 3	309	ANK 5.									skin(1)	1						TGGTGTGAGGCCATGCTGTAA	0.323													17	354					7.41877e-09	7.94206e-09	0.001882	1	0	
psiTPTE22	387590	broad.mit.edu	37	22	17119563	17119563	+	RNA	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:17119563C>T	uc002zls.1	+	2		c.400C>T			psiTPTE22_uc002zlr.2_RNA|psiTPTE22_uc002zlt.2_RNA					Homo sapiens cDNA FLJ10437 fis, clone NT2RP1000581.												0						TTCGGAGTATCGTTCTATTTC	0.353													25	57					0	0	0.006320	0	0	
GAB4	128954	broad.mit.edu	37	22	17472887	17472887	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:17472887G>A	uc002zlw.2	-	2	462	c.354C>T	c.(352-354)GGC>GGT	p.G118G	GAB4_uc010gqs.1_Silent_p.G118G	NM_001037814	NP_001032903	Q2WGN9	GAB4_HUMAN	GRB2-associated binding protein family, member	118	PH.									large_intestine(1)|ovary(1)	2		all_epithelial(15;0.112)|Lung NSC(13;0.248)				CAAACATATAGCCCTTCTGAA	0.502													10	243					0	0	0.006214	0	0	
GAB4	128954	broad.mit.edu	37	22	17488874	17488874	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:17488874C>T	uc002zlw.2	-	1	239	c.131G>A	c.(130-132)GGC>GAC	p.G44D	GAB4_uc010gqs.1_Missense_Mutation_p.G44D	NM_001037814	NP_001032903	Q2WGN9	GAB4_HUMAN	GRB2-associated binding protein family, member	44	PH.									large_intestine(1)|ovary(1)	2		all_epithelial(15;0.112)|Lung NSC(13;0.248)				CCTCAGCCAGCCGCTGTACAG	0.677													6	7					0	0	0.001984	0	0	
IL17RA	23765	broad.mit.edu	37	22	17581248	17581248	+	Missense_Mutation	SNP	C	T	T	rs145378071	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:17581248C>T	uc002zly.2	+	5	560	c.427C>T	c.(427-429)CGT>TGT	p.R143C	IL17RA_uc010gqt.2_Missense_Mutation_p.R143C	NM_014339	NP_055154	Q96F46	I17RA_HUMAN	interleukin 17A receptor precursor	143	Extracellular (Potential).				fibroblast activation|positive regulation of interleukin-23 production	integral to plasma membrane	interleukin-17 receptor activity			skin(2)	2		all_epithelial(15;0.0181)|Lung NSC(13;0.109)|all_lung(157;0.132)		Colorectal(9;0.241)		TCTTCAGTGGCGTTTTACCTT	0.547													32	98					0	0	0.006230	0	0	
BID	637	broad.mit.edu	37	22	18220811	18220811	+	Missense_Mutation	SNP	C	T	T	rs139212717		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:18220811C>T	uc002znd.1	-	5	718	c.548G>A	c.(547-549)CGC>CAC	p.R183H	BID_uc002znc.1_Missense_Mutation_p.R229H|BID_uc002zne.1_Missense_Mutation_p.R87H|BID_uc010gra.1_RNA|BID_uc002znf.1_Missense_Mutation_p.R87H|BID_uc010grb.1_Missense_Mutation_p.R183H|BID_uc010grc.1_Missense_Mutation_p.R87H	NM_001196	NP_001187	P55957	BID_HUMAN	BH3 interacting domain death agonist isoform 2	183					activation of pro-apoptotic gene products|establishment of protein localization in membrane|induction of apoptosis by intracellular signals|induction of apoptosis via death domain receptors|neuron apoptosis|positive regulation of protein homooligomerization|positive regulation of release of cytochrome c from mitochondria|release of cytochrome c from mitochondria	cytosol|membrane fraction|mitochondrial outer membrane	death receptor binding				0		all_epithelial(15;0.198)		Lung(27;0.0419)		CACGTAGGTGCGTAGGTTCTG	0.547													5	70					0	0	0.000602	0	0	
MICAL3	57553	broad.mit.edu	37	22	18368675	18368675	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:18368675G>A	uc002zng.3	-	16	2563	c.2210C>T	c.(2209-2211)GCG>GTG	p.A737V	MICAL3_uc011agl.1_Missense_Mutation_p.A737V|MICAL3_uc002znh.2_Missense_Mutation_p.A737V|MICAL3_uc002znj.1_Missense_Mutation_p.A437V|MICAL3_uc002znk.1_Missense_Mutation_p.A737V|MICAL3_uc002znl.1_Missense_Mutation_p.A370V|MICAL3_uc002znm.2_Missense_Mutation_p.A238V|MICAL3_uc010grf.2_Missense_Mutation_p.A737V	NM_015241	NP_056056	Q7RTP6	MICA3_HUMAN	microtubule associated monoxygenase, calponin	737						cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding				0		all_epithelial(15;0.198)		Lung(27;0.0427)		CTGTGCGGGCGCATTCTCTTC	0.547													21	73					0	0	0.002299	0	0	
TUBA8	51807	broad.mit.edu	37	22	18604435	18604435	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:18604435G>A	uc002znv.1	+	2	266	c.193G>A	c.(193-195)GCC>ACC	p.A65T	TUBA8_uc002znr.2_5'UTR|TUBA8_uc002znw.1_Missense_Mutation_p.A89T|TUBA8_uc002znu.1_Missense_Mutation_p.A65T	NM_018943	NP_061816	Q9NY65	TBA8_HUMAN	tubulin, alpha 8	65					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity				0						TGTGCCCCGGGCCGTCATGAT	0.547													13	26					0	0	0.002450	0	0	
DGCR14	8220	broad.mit.edu	37	22	19127471	19127471	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:19127471G>A	uc002zou.2	-	4	504	c.467C>T	c.(466-468)ACG>ATG	p.T156M	DGCR14_uc002zot.2_Missense_Mutation_p.T77M|DGCR14_uc002zov.2_RNA	NM_022719	NP_073210	Q96DF8	DGC14_HUMAN	DiGeorge syndrome critical region protein 14	156					nervous system development	catalytic step 2 spliceosome				ovary(1)	1	Colorectal(54;0.0993)					GTCCTCACTCGTGTAGCGGCT	0.607													26	85					0	0	0.009535	0	0	
HIRA	7290	broad.mit.edu	37	22	19346867	19346867	+	Silent	SNP	C	T	T	rs138814028	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:19346867C>T	uc002zpf.1	-	18	2446	c.2226G>A	c.(2224-2226)GCG>GCA	p.A742A	HIRA_uc011agx.1_Silent_p.A608A|HIRA_uc010grn.1_Intron|HIRA_uc010gro.1_Silent_p.A698A|HIRA_uc010grp.2_RNA	NM_003325	NP_003316	P54198	HIRA_HUMAN	HIR histone cell cycle regulation defective	742	Interaction with PAX3 (By similarity).|Interaction with histone H2B.|Interaction with histone H4.				chromatin modification|regulation of transcription from RNA polymerase II promoter	PML body	chromatin binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	Colorectal(54;0.0993)					ACCAGCTGCCCGCAGCAGTGA	0.637													9	17					0	0	0.008291	0	0	
DGCR8	54487	broad.mit.edu	37	22	20073913	20073913	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:20073913G>A	uc002zri.2	+	2	777	c.427G>A	c.(427-429)GAC>AAC	p.D143N	DGCR8_uc010grz.2_Missense_Mutation_p.D143N|DGCR8_uc002zrj.2_5'Flank	NM_022720	NP_073557	Q8WYQ5	DGCR8_HUMAN	DiGeorge syndrome critical region gene 8	143	Necessary for nuclear localization and retention.|Necessary for interaction with NCL.				primary miRNA processing	cytoplasm|cytoplasm|microtubule cytoskeleton|nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding				0	Colorectal(54;0.0993)					AGCAGAGCGCGACGTGCGGGC	0.582													4	43					0	0	0.009096	0	0	
ZDHHC8	29801	broad.mit.edu	37	22	20128442	20128442	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:20128442G>A	uc002zrq.2	+	7	907	c.801G>A	c.(799-801)CCG>CCA	p.P267P	ZDHHC8_uc002zrr.1_Silent_p.P267P|ZDHHC8_uc010gsa.2_Silent_p.P73P	NM_013373	NP_037505	Q9ULC8	ZDHC8_HUMAN	zinc finger, DHHC domain containing 8	267	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Colorectal(54;0.0993)					GTTTGAAGCCGCCTTTCCTTA	0.637													11	25					0	0	0.001855	0	0	
ZNF74	7625	broad.mit.edu	37	22	20759892	20759892	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:20759892G>A	uc010gsm.2	+	6	781	c.569G>A	c.(568-570)CGC>CAC	p.R190H	ZNF74_uc002zsg.2_Missense_Mutation_p.R119H|ZNF74_uc002zsh.2_Missense_Mutation_p.R190H|ZNF74_uc002zsi.2_Missense_Mutation_p.R119H|ZNF74_uc010gsn.2_Missense_Mutation_p.R119H	NM_003426	NP_003417	Q16587	ZNF74_HUMAN	zinc finger protein 74	190					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	actin cytoskeleton|nucleus	DNA binding|RNA binding|zinc ion binding			ovary(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.0025)|Colorectal(54;0.0221)|all_neural(72;0.219)	Lung SC(17;0.0262)|all_lung(157;0.248)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			GCCCAGCAACGCGTTCCCGAG	0.667													6	11					0	0	0.004482	0	0	
PI4KA	5297	broad.mit.edu	37	22	21062348	21062348	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:21062348T>C	uc002zsz.3	-	55	6353	c.6122A>G	c.(6121-6123)GAC>GGC	p.D2041G	PI4KA_uc010gsp.2_Missense_Mutation_p.D432G|PI4KA_uc002zsy.3_Missense_Mutation_p.D851G	NM_058004	NP_477352	P42356	PI4KA_HUMAN	phosphatidylinositol 4-kinase type 3 alpha	2041					phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|synaptic transmission	Golgi-associated vesicle	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			lung(2)|upper_aerodigestive_tract(1)|salivary_gland(1)	4	all_cancers(11;7.59e-25)|all_epithelial(7;1.34e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)			GTAGGGGATGTCATTCTGATA	0.612													10	98					0	0	0.001368	0	0	
SERPIND1	3053	broad.mit.edu	37	22	21134082	21134082	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:21134082C>T	uc002ztb.1	+	2	549	c.482C>T	c.(481-483)GCG>GTG	p.A161V	PI4KA_uc002zsz.3_Intron|SERPIND1_uc002ztc.2_Missense_Mutation_p.A189V	NM_000185	NP_000176	P05546	HEP2_HUMAN	heparin cofactor II precursor	161					blood coagulation|chemotaxis|regulation of proteolysis	extracellular region	heparin binding|serine-type endopeptidase inhibitor activity				0	all_cancers(11;6.16e-25)|all_epithelial(7;1.02e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)		Ardeparin(DB00407)	ATTTCTACTGCGATGGGTATG	0.443													28	73					0	0	0.007291	0	0	
SLC7A4	6545	broad.mit.edu	37	22	21385306	21385306	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:21385306G>A	uc002zud.2	-	2	864	c.796C>T	c.(796-798)CGG>TGG	p.R266W	SLC7A4_uc002zue.2_Missense_Mutation_p.R266W	NM_004173	NP_004164	O43246	CTR4_HUMAN	solute carrier family 7 (cationic amino acid	266					cellular amino acid metabolic process	integral to membrane	basic amino acid transmembrane transporter activity			ovary(1)|lung(1)	2	all_cancers(11;2.85e-22)|Lung NSC(8;4.21e-14)|all_lung(8;6.08e-13)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0968)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)		L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	GGCACAGACCGCCGTGGGTTC	0.632													8	13					0	0	0.004482	0	0	
HIC2	23119	broad.mit.edu	37	22	21799218	21799218	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:21799218G>A	uc002zur.3	+	3	264	c.34G>A	c.(34-36)GCG>ACG	p.A12T	HIC2_uc002zus.3_Missense_Mutation_p.A12T	NM_015094	NP_055909	Q96JB3	HIC2_HUMAN	hypermethylated in cancer 2	12					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	focal adhesion|nucleus	DNA binding|protein C-terminus binding|zinc ion binding			skin(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00438)|Colorectal(54;0.0968)	Lung SC(17;0.0262)|all_lung(157;0.205)				CAGGTGGTGCGCGTGGGCAGG	0.672													4	28					0	0	0.001168	0	0	
HIC2	23119	broad.mit.edu	37	22	21800560	21800560	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:21800560C>T	uc002zur.3	+	3	1606	c.1376C>T	c.(1375-1377)GCG>GTG	p.A459V	HIC2_uc002zus.3_Missense_Mutation_p.A459V	NM_015094	NP_055909	Q96JB3	HIC2_HUMAN	hypermethylated in cancer 2	459	C2H2-type 1.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	focal adhesion|nucleus	DNA binding|protein C-terminus binding|zinc ion binding			skin(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00438)|Colorectal(54;0.0968)	Lung SC(17;0.0262)|all_lung(157;0.205)				CAGCTCAATGCGCACGTGGAG	0.612													5	51					0	0	0.000602	0	0	
LOC96610	96610	broad.mit.edu	37	22	22664115	22664115	+	RNA	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:22664115A>T	uc011aim.1	+	30		c.1972A>T			LOC96610_uc011aiq.1_RNA					Parts of antibodies, mostly variable regions.												0						TGTTTAATTCAGCCTTGGAAG	0.413													8	64					0	0	0.003080	0	0	
LOC96610	96610	broad.mit.edu	37	22	22764458	22764458	+	RNA	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:22764458T>C	uc011aim.1	+	58		c.6245T>C								Parts of antibodies, mostly variable regions.												0						GCCCCCAAACTCCTCATCTAT	0.597													9	179					0	0	0.004007	0	0	
RAB36	9609	broad.mit.edu	37	22	23494702	23494702	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:23494702C>T	uc002zwv.1	+	4	454	c.414C>T	c.(412-414)AGC>AGT	p.S138S	RAB36_uc010gtw.1_Intron	NM_004914	NP_004905	O95755	RAB36_HUMAN	RAB36, member RAS oncogene family	138					protein transport|small GTPase mediated signal transduction	Golgi membrane	GTP binding			ovary(1)|central_nervous_system(1)	2	all_hematologic(9;0.0197)|Acute lymphoblastic leukemia(84;0.181)			READ - Rectum adenocarcinoma(21;0.155)		GGAAGACCAGCCTCATCCACA	0.567													6	33					0	0	0.001984	0	0	
IGLL1	3543	broad.mit.edu	37	22	23915549	23915549	+	Silent	SNP	C	T	T	rs146592375		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:23915549C>T	uc002zxd.2	-	3	664	c.546G>A	c.(544-546)ACG>ACA	p.T182T	IGLL1_uc002zxe.2_3'UTR	NM_020070	NP_064455	P15814	IGLL1_HUMAN	immunoglobulin lambda-like polypeptide 1 isoform	182	C region (By similarity to lambda light- chain).|Ig-like C1-type.				immune response	extracellular region|membrane					0						ACTGCTCGGGCGTCAGGCTCA	0.612													21	33					0	0	0.002299	0	0	
C22orf43	51233	broad.mit.edu	37	22	23974150	23974150	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:23974150C>T	uc002zxf.2	-	1	338	c.61G>A	c.(61-63)GCA>ACA	p.A21T		NM_016449	NP_057533	Q6PGQ1	CV043_HUMAN	hypothetical protein LOC51233	21										skin(1)	1						TAACAGGGTGCGTCCTTCCCC	0.537													10	30					0	0	0.008291	0	0	
CABIN1	23523	broad.mit.edu	37	22	24567727	24567727	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:24567727G>A	uc002zzi.1	+	34	5931	c.5804G>A	c.(5803-5805)CGA>CAA	p.R1935Q	CABIN1_uc002zzj.1_Missense_Mutation_p.R1856Q|CABIN1_uc002zzl.1_Missense_Mutation_p.R1935Q|CABIN1_uc010gul.1_5'UTR	NM_012295	NP_036427	Q9Y6J0	CABIN_HUMAN	calcineurin binding protein 1	1935					cell surface receptor linked signaling pathway|chromatin modification	nucleus	protein phosphatase inhibitor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						AAAGACAGCCGAGAGAACTTC	0.622													22	54					0	0	0.003954	0	0	
SUSD2	56241	broad.mit.edu	37	22	24580172	24580172	+	Missense_Mutation	SNP	G	A	A	rs114108445	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:24580172G>A	uc002zzn.1	+	4	552	c.508G>A	c.(508-510)GGC>AGC	p.G170S		NM_019601	NP_062547	Q9UGT4	SUSD2_HUMAN	sushi domain containing 2 precursor	170	Extracellular (Potential).				immune response	integral to membrane	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						GCAATACTACGGCACCGCCAA	0.597													11	54					0	0	0.003163	0	0	
ADRBK2	157	broad.mit.edu	37	22	26110386	26110386	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:26110386C>T	uc003abx.3	+	18	1650	c.1503C>T	c.(1501-1503)TGC>TGT	p.C501C	ADRBK2_uc003abw.2_Silent_p.C388C|ADRBK2_uc003aby.3_RNA	NM_005160	NP_005151	P35626	ARBK2_HUMAN	beta-adrenergic receptor kinase 2	501	AGC-kinase C-terminal.						ATP binding|beta-adrenergic receptor kinase activity|signal transducer activity			lung(3)|ovary(2)|stomach(1)|central_nervous_system(1)	7					Adenosine triphosphate(DB00171)	TACTTGATTGCGACCAAGAAC	0.398													17	60					0	0	0.006122	0	0	
MYO18B	84700	broad.mit.edu	37	22	26157081	26157081	+	Missense_Mutation	SNP	G	A	A	rs139296373	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:26157081G>A	uc003abz.1	+	2	272	c.22G>A	c.(22-24)GCC>ACC	p.A8T	MYO18B_uc003aca.1_5'Flank|MYO18B_uc010guy.1_5'Flank|MYO18B_uc010guz.1_5'Flank|MYO18B_uc011aka.1_5'Flank	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	8						nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						ATCACGCCTCGCCCTGTGGGA	0.592													13	58					0	0	0.002450	0	0	
MYO18B	84700	broad.mit.edu	37	22	26173737	26173737	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:26173737G>A	uc003abz.1	+	8	2307	c.2057G>A	c.(2056-2058)GGC>GAC	p.G686D	MYO18B_uc003aca.1_Missense_Mutation_p.G567D|MYO18B_uc010guy.1_Missense_Mutation_p.G567D|MYO18B_uc010guz.1_Missense_Mutation_p.G567D|MYO18B_uc011aka.1_5'UTR|MYO18B_uc011akb.1_Missense_Mutation_p.G199D	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	686	Myosin head-like.					nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						AGTGTGGATGGCAGGGTCTCA	0.572													8	29					0	0	0.004482	0	0	
MYO18B	84700	broad.mit.edu	37	22	26299648	26299648	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:26299648G>T	uc003abz.1	+	31	5248	c.4998G>T	c.(4996-4998)CAG>CAT	p.Q1666H	MYO18B_uc003aca.1_Missense_Mutation_p.Q1547H|MYO18B_uc010guy.1_Missense_Mutation_p.Q1548H|MYO18B_uc010guz.1_Missense_Mutation_p.Q1546H|MYO18B_uc011aka.1_Missense_Mutation_p.Q820H|MYO18B_uc011akb.1_Missense_Mutation_p.Q1179H	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	1666	Potential.|Tail.|Gln-rich.					nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						AGATGCTACAGGACCATAAAC	0.552													3	9					0.00024832	0.000259867	0.009096	1	0	
SEZ6L	23544	broad.mit.edu	37	22	26688919	26688919	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:26688919A>G	uc003acb.2	+	2	798	c.642A>G	c.(640-642)ACA>ACG	p.T214T	SEZ6L_uc003acc.2_Silent_p.T214T|SEZ6L_uc011akc.1_Silent_p.T214T|SEZ6L_uc003acd.2_Silent_p.T214T|SEZ6L_uc011akd.1_Silent_p.T214T|SEZ6L_uc003ace.2_Silent_p.T214T|SEZ6L_uc003acf.1_5'UTR|SEZ6L_uc010gvc.1_5'UTR	NM_021115	NP_066938	Q9BYH1	SE6L1_HUMAN	seizure related 6 homolog (mouse)-like	214	Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane				ovary(4)|central_nervous_system(1)|pancreas(1)	6						TGGCCCACACACTCCCCCAGA	0.647													25	33					0	0	0.007291	0	0	
ASPHD2	57168	broad.mit.edu	37	22	26839084	26839084	+	Missense_Mutation	SNP	G	A	A	rs138986249		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:26839084G>A	uc003acg.2	+	4	1419	c.1022G>A	c.(1021-1023)CGG>CAG	p.R341Q		NM_020437	NP_065170	Q6ICH7	ASPH2_HUMAN	aspartate beta-hydroxylase domain containing 2	341	Lumenal (Potential).				peptidyl-amino acid modification	integral to endoplasmic reticulum membrane	oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptide-aspartate beta-dioxygenase activity			ovary(1)	1						GATGGCCCACGGGTGGTTTTC	0.592													37	125					0	0	0.003610	0	0	
TFIP11	24144	broad.mit.edu	37	22	26890122	26890122	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:26890122G>A	uc003acr.2	-	13	2515	c.2141C>T	c.(2140-2142)GCG>GTG	p.A714V	TFIP11_uc003acq.2_Missense_Mutation_p.A73V|TFIP11_uc003acs.2_Missense_Mutation_p.A714V|TFIP11_uc003act.2_Missense_Mutation_p.A714V|uc003acu.1_RNA	NM_012143	NP_036275	Q9UBB9	TFP11_HUMAN	tuftelin interacting protein 11	714					biomineral tissue development	catalytic step 2 spliceosome|cytoplasm|nuclear speck	DNA binding|sequence-specific DNA binding transcription factor activity				0						GGAGGACACCGCCCGGTTCAT	0.453													21	52					0	0	0.002780	0	0	
TPST2	8459	broad.mit.edu	37	22	26937372	26937372	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:26937372G>A	uc003acv.2	-	2	393	c.225C>T	c.(223-225)GGC>GGT	p.G75G	TPST2_uc003acw.2_Silent_p.G75G|TPST2_uc003acx.2_Silent_p.G75G|TPST2_uc011akf.1_Silent_p.G75G	NM_003595	NP_003586	O60704	TPST2_HUMAN	tyrosylprotein sulfotransferase 2	75	Lumenal (Potential).				peptidyl-tyrosine sulfation	endoplasmic reticulum|Golgi membrane|integral to membrane|membrane fraction	protein-tyrosine sulfotransferase activity			central_nervous_system(1)	1						TGCGAGGCACGCCACCCACGA	0.687													8	21					0	0	0.003080	0	0	
MN1	4330	broad.mit.edu	37	22	28194145	28194145	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:28194145C>T	uc003adj.2	-	1	3342	c.2387G>A	c.(2386-2388)CGC>CAC	p.R796H		NM_002430	NP_002421	Q10571	MN1_HUMAN	meningioma  1	796							binding			central_nervous_system(3)|lung(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	10						GGCCGAGGTGCGCTGGCTGGG	0.701			T	ETV6	AML|meningioma								3	4					0	0	0.004672	0	0	
MN1	4330	broad.mit.edu	37	22	28195159	28195159	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:28195159C>T	uc003adj.2	-	1	2328	c.1373G>A	c.(1372-1374)CGC>CAC	p.R458H		NM_002430	NP_002421	Q10571	MN1_HUMAN	meningioma  1	458							binding			central_nervous_system(3)|lung(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	10						AAAGTCGAAGCGCGGCCTCTT	0.647			T	ETV6	AML|meningioma								3	10					0	0	0.004672	0	0	
XBP1	7494	broad.mit.edu	37	22	29191491	29191491	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:29191491A>C	uc011akl.1	-	6	851	c.803T>G	c.(802-804)ATA>AGA	p.I268R	XBP1_uc003aec.2_Missense_Mutation_p.I89R|XBP1_uc003aed.2_3'UTR|XBP1_uc003aef.2_Missense_Mutation_p.I89R	NM_001079539	NP_001073007	P17861	XBP1_HUMAN	X-box binding protein 1 isoform XBP1(S)	Error:Variant_position_missing_in_P17861_after_alignment					immune response	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)	1						CTCAGAGGGTATCTCTAAGAC	0.468													3	42					0	0	0.004672	0	0	
AP1B1	162	broad.mit.edu	37	22	29745285	29745285	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:29745285G>A	uc003afj.2	-	11	1543	c.1359C>T	c.(1357-1359)GGC>GGT	p.G453G	AP1B1_uc003afi.2_Silent_p.G453G|AP1B1_uc003afk.2_Silent_p.G453G|AP1B1_uc003afl.2_Silent_p.G453G|AP1B1_uc011ako.1_Silent_p.G6G	NM_001127	NP_001118	Q10567	AP1B1_HUMAN	adaptor-related protein complex 1 beta 1 subunit	453					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane	protein binding|protein transporter activity			ovary(1)|skin(1)	2						CCGCGTACTCGCCCACAATCC	0.602													22	49					0	0	0.003954	0	0	
CABP7	164633	broad.mit.edu	37	22	30125542	30125542	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:30125542G>A	uc003agl.2	+	5	702	c.632G>A	c.(631-633)CGC>CAC	p.R211H		NM_182527	NP_872333	Q86V35	CABP7_HUMAN	calcium binding protein 7	211	Extracellular (Potential).					Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|plasma membrane	calcium ion binding				0			OV - Ovarian serous cystadenocarcinoma(5;0.00442)|Epithelial(10;0.215)|all cancers(5;0.233)			CAGGTGCTGCGCAGTGGCATG	0.647													7	23					0	0	0.004482	0	0	
ASCC2	84164	broad.mit.edu	37	22	30221725	30221725	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:30221725C>T	uc003agr.2	-	3	231	c.126G>A	c.(124-126)CCG>CCA	p.P42P	ASCC2_uc003ags.2_RNA|ASCC2_uc003agt.2_Silent_p.P42P|ASCC2_uc011akr.1_Intron	NM_032204	NP_115580	Q9H1I8	ASCC2_HUMAN	activating signal cointegrator 1 complex subunit	42					regulation of transcription, DNA-dependent|transcription, DNA-dependent						0			OV - Ovarian serous cystadenocarcinoma(5;0.000103)|Epithelial(10;0.0169)|all cancers(5;0.0259)			CTTTAGGGGGCGGTTTGTATA	0.557													11	117					0	0	0.001368	0	0	
SF3A1	10291	broad.mit.edu	37	22	30730631	30730631	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:30730631G>A	uc003ahl.2	-	16	2466	c.2334C>T	c.(2332-2334)GGC>GGT	p.G778G		NM_005877	NP_005868	Q15459	SF3A1_HUMAN	splicing factor 3a, subunit 1, 120kDa isoform 1	778	Ubiquitin-like.				nuclear mRNA 3'-splice site recognition	catalytic step 2 spliceosome|nucleoplasm|U2-type spliceosomal complex	protein binding|RNA binding			ovary(3)|large_intestine(1)|pancreas(1)	5						GGATGACTGCGCCATTGGCCA	0.542													15	49					0	0	0.006122	0	0	
SF3A1	10291	broad.mit.edu	37	22	30734847	30734847	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:30734847C>T	uc003ahl.2	-	11	1806	c.1674G>A	c.(1672-1674)CCG>CCA	p.P558P		NM_005877	NP_005868	Q15459	SF3A1_HUMAN	splicing factor 3a, subunit 1, 120kDa isoform 1	558	Poly-Pro.				nuclear mRNA 3'-splice site recognition	catalytic step 2 spliceosome|nucleoplasm|U2-type spliceosomal complex	protein binding|RNA binding			ovary(3)|large_intestine(1)|pancreas(1)	5						AAGATGGTGGCGGTGGCTGTT	0.557													8	54					0	0	0.004482	0	0	
SMTN	6525	broad.mit.edu	37	22	31484712	31484712	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:31484712C>T	uc003ajl.1	+	5	540	c.322C>T	c.(322-324)CGC>TGC	p.R108C	SMTN_uc003ajk.1_Missense_Mutation_p.R108C|SMTN_uc003ajm.1_Missense_Mutation_p.R108C|SMTN_uc011ale.1_Missense_Mutation_p.R162C|SMTN_uc011alf.1_Missense_Mutation_p.R164C|SMTN_uc003ajn.1_Missense_Mutation_p.R100C|SMTN_uc011alg.1_5'Flank	NM_006932	NP_008863	P53814	SMTN_HUMAN	smoothelin isoform c	108					muscle organ development|smooth muscle contraction	actin cytoskeleton|cytoplasm	actin binding|structural constituent of muscle			large_intestine(2)|pancreas(1)	3						GTATGAGGAGCGCAAGCTGAT	0.642													6	8					0	0	0.001168	0	0	
PLA2G3	50487	broad.mit.edu	37	22	31533804	31533804	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:31533804G>A	uc003aka.2	-	4	1087	c.958C>T	c.(958-960)CGC>TGC	p.R320C		NM_015715	NP_056530	Q9NZ20	PA2G3_HUMAN	phospholipase A2, group III precursor	320					cilium morphogenesis|lipid catabolic process|phospholipid metabolic process	centriole|extracellular space|plasma membrane	calcium ion binding|calcium-dependent phospholipase A2 activity				0						TTGCTGGGGCGCTTGGACCCT	0.657													16	60					0	0	0.008871	0	0	
EIF4ENIF1	56478	broad.mit.edu	37	22	31854475	31854475	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:31854475G>A	uc003akz.1	-	7	1113	c.949C>T	c.(949-951)CCA>TCA	p.P317S	EIF4ENIF1_uc003akx.1_5'Flank|EIF4ENIF1_uc003aky.1_5'Flank|EIF4ENIF1_uc003ala.1_Missense_Mutation_p.P317S|EIF4ENIF1_uc003alb.1_Missense_Mutation_p.P154S	NM_019843	NP_062817	Q9NRA8	4ET_HUMAN	eukaryotic translation initiation factor 4E	317						nucleus	protein binding|protein transporter activity			ovary(1)	1						GCCAAGCATGGCACCTTATCA	0.453													5	55					0	0	0.003080	0	0	
SLC5A4	6527	broad.mit.edu	37	22	32650199	32650199	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:32650199G>A	uc003ami.2	-	2	139	c.137C>T	c.(136-138)GCG>GTG	p.A46V		NM_014227	NP_055042	Q9NY91	SC5A4_HUMAN	solute carrier family 5 (low affinity glucose	46	Helical; (Potential).				carbohydrate transport|sodium ion transport	integral to membrane	symporter activity				0						CTTCAGCATCGCCTGAGCAGA	0.572													16	33					0	0	0.004007	0	0	
MCM5	4174	broad.mit.edu	37	22	35802622	35802622	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:35802622G>A	uc003anu.3	+	5	594	c.500G>A	c.(499-501)CGC>CAC	p.R167H	MCM5_uc010gwr.2_5'UTR|MCM5_uc003anv.3_Missense_Mutation_p.R124H|MCM5_uc010gws.1_5'Flank	NM_006739	NP_006730	P33992	MCM5_HUMAN	minichromosome maintenance complex component 5	167					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|DNA binding|helicase activity|protein binding			ovary(1)	1						AAGGCCACCCGCATCTCTATC	0.607													3	10					0	0	0.009096	0	0	
RASD2	23551	broad.mit.edu	37	22	35947713	35947713	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:35947713C>T	uc003anx.2	+	3	640	c.435C>T	c.(433-435)GGC>GGT	p.G145G	RASD2_uc003any.2_Silent_p.G145G	NM_014310	NP_055125	Q96D21	RHES_HUMAN	RASD family, member 2 precursor	145					locomotory behavior|positive regulation of protein kinase B signaling cascade|positive regulation of protein sumoylation|regulation of cAMP-mediated signaling	intracellular|plasma membrane	G-protein beta-subunit binding|GTP binding|GTPase activity			lung(2)|skin(1)	3						ACGACCACGGCGAGCTGTGCC	0.617													7	18					0	0	0.003080	0	0	
APOL6	80830	broad.mit.edu	37	22	36055294	36055294	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:36055294C>T	uc003aoe.2	+	3	977	c.683C>T	c.(682-684)GCG>GTG	p.A228V	APOL6_uc003aod.2_RNA	NM_030641	NP_085144	Q9BWW8	APOL6_HUMAN	apolipoprotein L6	228					lipoprotein metabolic process	cytoplasm|extracellular region	lipid binding|lipid transporter activity				0						ACAACACTGGCGATGACCAAA	0.572													6	77					0	0	0.001984	0	0	
MYH9	4627	broad.mit.edu	37	22	36698665	36698665	+	Silent	SNP	G	A	A	rs113285582	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:36698665G>A	uc003apg.2	-	20	2679	c.2448C>T	c.(2446-2448)TGC>TGT	p.C816C	MYH9_uc003aph.1_Silent_p.C680C	NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	816					actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						GGTAGGCAGCGCAGTTCCGCT	0.507			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				7	26					0	0	0.000978	0	0	
TMPRSS6	164656	broad.mit.edu	37	22	37462911	37462911	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:37462911G>A	uc003aqs.1	-	17	2346	c.2232C>T	c.(2230-2232)CGC>CGT	p.R744R	TMPRSS6_uc003aqt.1_Silent_p.R757R	NM_153609	NP_705837	Q8IU80	TMPS6_HUMAN	transmembrane protease, serine 6	744	Peptidase S1.|Extracellular (Potential).				angiogenesis|extracellular matrix organization|fibrinolysis|intracellular signal transduction|proteolysis	integral to membrane|intracellular|plasma membrane	serine-type endopeptidase activity			breast(4)|ovary(1)|skin(1)	6						CACACAGCATGCGTGGCGTCA	0.612													5	15					0	0	0.001168	0	0	
TMPRSS6	164656	broad.mit.edu	37	22	37471264	37471264	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:37471264G>T	uc003aqs.1	-	11	1394	c.1280C>A	c.(1279-1281)ACG>AAG	p.T427K	TMPRSS6_uc003aqt.1_Missense_Mutation_p.T418K	NM_153609	NP_705837	Q8IU80	TMPS6_HUMAN	transmembrane protease, serine 6	427	CUB 2.|Extracellular (Potential).				angiogenesis|extracellular matrix organization|fibrinolysis|intracellular signal transduction|proteolysis	integral to membrane|intracellular|plasma membrane	serine-type endopeptidase activity			breast(4)|ovary(1)|skin(1)	6						GATCCCGGCCGTGGCCACCAC	0.647													12	27					0.00136819	0.00142269	0.001368	1	0	
SSTR3	6753	broad.mit.edu	37	22	37603530	37603530	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:37603530C>T	uc003ara.2	-	2	375	c.313G>A	c.(313-315)GCC>ACC	p.A105T	SSTR3_uc003arb.2_Missense_Mutation_p.A105T	NM_001051	NP_001042	P32745	SSR3_HUMAN	somatostatin receptor 3	105	Extracellular (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|induction of apoptosis by hormones|negative regulation of cell proliferation	integral to plasma membrane|nonmotile primary cilium	somatostatin receptor activity			lung(1)	1						TAGGACAGGGCGTTCTGGGCG	0.622													10	31					0	0	0.001855	0	0	
TRIOBP	11078	broad.mit.edu	37	22	38119860	38119860	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:38119860G>A	uc003atr.2	+	7	1568	c.1297G>A	c.(1297-1299)GCC>ACC	p.A433T	TRIOBP_uc003atu.2_Missense_Mutation_p.A261T|TRIOBP_uc003atq.1_Missense_Mutation_p.A433T|TRIOBP_uc003ats.1_Missense_Mutation_p.A261T	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	433					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					AACATCCTGCGCCCAGCGGGA	0.582													27	77					0	0	0.008361	0	0	
DMC1	11144	broad.mit.edu	37	22	38934370	38934370	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:38934370G>A	uc003avz.1	-	11	880	c.705C>T	c.(703-705)GGC>GGT	p.G235G	DMC1_uc011anv.1_Silent_p.G180G	NM_007068	NP_008999	Q14565	DMC1_HUMAN	DMC1 dosage suppressor of mck1 homolog	235					reciprocal meiotic recombination	condensed nuclear chromosome	ATP binding|DNA binding|DNA-dependent ATPase activity|protein binding			ovary(1)	1	Melanoma(58;0.0286)					ACTCCCCACGGCCACTGAAAT	0.388								Homologous_recombination					12	38					0	0	0.002450	0	0	
SUN2	25777	broad.mit.edu	37	22	39148607	39148607	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:39148607C>T	uc003awh.1	-	3	311	c.27G>A	c.(25-27)ACG>ACA	p.T9T	SUN2_uc011anz.1_Silent_p.T44T|SUN2_uc011aoa.1_Silent_p.T44T|SUN2_uc003awi.1_Silent_p.T9T|SUN2_uc010gxq.1_Silent_p.T9T|SUN2_uc010gxr.1_Silent_p.T9T|SUN2_uc010gxs.1_Silent_p.T9T	NM_015374	NP_056189	Q9UH99	SUN2_HUMAN	unc-84 homolog B	9	Nuclear.|Ser-rich.|LMNA-binding (By similarity).				centrosome localization|cytoskeletal anchoring at nuclear membrane|mitotic spindle organization|nuclear envelope organization|nuclear matrix anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	endosome membrane|integral to membrane|nuclear inner membrane|SUN-KASH complex	lamin binding|microtubule binding			large_intestine(1)|skin(1)	2						GGGAGTAGCGCGTGAGGCGCT	0.592													6	12					0	0	0.003080	0	0	
APOBEC3D	140564	broad.mit.edu	37	22	39418941	39418941	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:39418941C>T	uc011aoe.1	+	2	186	c.132C>T	c.(130-132)GGC>GGT	p.G44G	APOBEC3D_uc011aod.1_Silent_p.G44G|APOBEC3D_uc011aof.1_Silent_p.G44G|APOBEC3D_uc003awu.3_Silent_p.G44G|APOBEC3D_uc003awt.3_Silent_p.G44G|APOBEC3D_uc010gxu.2_5'UTR	NM_152426	NP_689639	Q96AK3	ABC3D_HUMAN	apolipoprotein B mRNA editing enzyme, catalytic	44					negative regulation of transposition		hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines|zinc ion binding				0	Melanoma(58;0.04)					TAAAGAGGGGCCGCTCAAATC	0.502													10	54					0	0	0.007413	0	0	
APOBEC3G	60489	broad.mit.edu	37	22	39482482	39482482	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:39482482G>A	uc003awx.2	+	6	1276	c.934G>A	c.(934-936)GCC>ACC	p.A312T	APOBEC3G_uc003awy.2_Missense_Mutation_p.A245T	NM_021822	NP_068594	Q9HC16	ABC3G_HUMAN	apolipoprotein B mRNA editing enzyme, catalytic	312					base conversion or substitution editing|DNA cytosine deamination|innate immune response|interspecies interaction between organisms|negative regulation of retroviral genome replication|negative regulation of transposition|positive regulation of defense response to virus by host|response to virus|viral reproduction	apolipoprotein B mRNA editing enzyme complex|cytosol|mitochondrion	cytidine deaminase activity|dCTP deaminase activity|protein homodimerization activity|RNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2	Melanoma(58;0.04)					CATCTTCACTGCCCGCATCTA	0.512													26	70					0	0	0.007291	0	0	
TAB1	10454	broad.mit.edu	37	22	39811575	39811575	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:39811575G>T	uc003axt.2	+	3	290	c.241G>T	c.(241-243)GCC>TCC	p.A81S	TAB1_uc003axr.2_Missense_Mutation_p.A157S|TAB1_uc011aok.1_5'UTR|TAB1_uc003axu.1_Missense_Mutation_p.A81S	NM_006116	NP_006107	Q15750	TAB1_HUMAN	mitogen-activated protein kinase kinase kinase 7	81	PP2C-like.				activation of MAPK activity|activation of MAPKKK activity|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane	catalytic activity|protein binding			breast(1)	1						CAACTTCGTGGCCCAGCGGCT	0.637													17	35					1.33834e-09	1.43568e-09	0.007413	1	0	
MGAT3	4248	broad.mit.edu	37	22	39883366	39883366	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:39883366G>A	uc003axv.3	+	2	253	c.14G>A	c.(13-15)CGC>CAC	p.R5H	MGAT3_uc010gxy.2_Missense_Mutation_p.R5H	NM_002409	NP_002400	Q09327	MGAT3_HUMAN	mannosyl (beta-1,4-)-glycoprotein	5	Cytoplasmic (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	beta-1,4-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity				0	Melanoma(58;0.04)					AAGATGAGACGCTACAAGCTC	0.567													9	100					0	0	0.004482	0	0	
CACNA1I	8911	broad.mit.edu	37	22	40056386	40056386	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:40056386G>A	uc003ayc.2	+	15	2642	c.2642G>A	c.(2641-2643)AGC>AAC	p.S881N	CACNA1I_uc003ayd.2_Missense_Mutation_p.S846N|CACNA1I_uc003aye.2_Missense_Mutation_p.S796N|CACNA1I_uc003ayf.2_Missense_Mutation_p.S761N	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	881	Cytoplasmic (Potential).				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	GAGGACCAGAGCTCATCCAAC	0.577													16	29					0	0	0.006122	0	0	
GRAP2	9402	broad.mit.edu	37	22	40365422	40365422	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:40365422G>T	uc003ayh.1	+	7	961	c.698G>T	c.(697-699)CGA>CTA	p.R233L	GRAP2_uc003ayi.2_RNA|GRAP2_uc011aom.1_Missense_Mutation_p.R207L|GRAP2_uc011aon.1_Missense_Mutation_p.R167L|GRAP2_uc010gya.1_Missense_Mutation_p.R233L|GRAP2_uc011aoo.1_Missense_Mutation_p.R161L|GRAP2_uc011aop.1_Missense_Mutation_p.R193L|GRAP2_uc011aoq.1_Missense_Mutation_p.R120L|GRAP2_uc003ayj.1_Missense_Mutation_p.R233L	NM_004810	NP_004801	O75791	GRAP2_HUMAN	GRB2-related adaptor protein 2	233					cell-cell signaling|Ras protein signal transduction|T cell costimulation|T cell receptor signaling pathway	cytosol	SH3/SH2 adaptor activity			upper_aerodigestive_tract(1)|central_nervous_system(1)	2						TAGGAACGCCGAGGAGGCAGC	0.572													9	79					3.86212e-05	4.06125e-05	0.008291	1	0	
TNRC6B	23112	broad.mit.edu	37	22	40681651	40681651	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:40681651C>T	uc011aor.1	+	12	3796	c.3585C>T	c.(3583-3585)GGC>GGT	p.G1195G	TNRC6B_uc003aym.2_Silent_p.G391G|TNRC6B_uc003ayn.3_Silent_p.G1085G|TNRC6B_uc003ayo.2_Silent_p.G942G	NM_001162501	NP_001155973	Q9UPQ9	TNR6B_HUMAN	trinucleotide repeat containing 6B isoform 1	1195	Gln-rich.				gene silencing by RNA|regulation of translation	cytoplasmic mRNA processing body	nucleotide binding|RNA binding				0						GTTTACAGGGCGGTAGTCATG	0.463													7	80					0	0	0.001984	0	0	
TNRC6B	23112	broad.mit.edu	37	22	40717102	40717102	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:40717102G>A	uc011aor.1	+	22	5194	c.4983G>A	c.(4981-4983)GGG>GGA	p.G1661G	TNRC6B_uc003aym.2_Silent_p.G857G|TNRC6B_uc003ayn.3_Silent_p.G1551G|TNRC6B_uc003ayo.2_Silent_p.G1408G	NM_001162501	NP_001155973	Q9UPQ9	TNR6B_HUMAN	trinucleotide repeat containing 6B isoform 1	1661	RRM.				gene silencing by RNA|regulation of translation	cytoplasmic mRNA processing body	nucleotide binding|RNA binding				0						AGATTGATGGGTCAACCTTGA	0.473													5	67					0	0	0.000602	0	0	
DNAJB7	150353	broad.mit.edu	37	22	41257568	41257568	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:41257568T>A	uc003azj.2	-	1	563	c.431A>T	c.(430-432)TAT>TTT	p.Y144F	XPNPEP3_uc011aox.1_Intron|XPNPEP3_uc003azh.2_Intron|XPNPEP3_uc003azi.2_Intron|XPNPEP3_uc011aoy.1_5'Flank|XPNPEP3_uc003azg.1_Intron|XPNPEP3_uc003azf.1_Intron|XPNPEP3_uc010gyh.1_5'Flank	NM_145174	NP_660157	Q7Z6W7	DNJB7_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 7	144					protein folding		heat shock protein binding|unfolded protein binding			ovary(1)	1						AAAAATTGGATATTCACTGGC	0.408													6	107					0	0	0.001168	0	0	
EP300	2033	broad.mit.edu	37	22	41489028	41489028	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:41489028A>G	uc003azl.3	+	1	415	c.20A>G	c.(19-21)GAA>GGA	p.E7G		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300	7	Interaction with ALX1.				apoptosis|cell cycle|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|histone H4 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of androgen receptor signaling pathway|response to estrogen stimulus|response to hypoxia	centrosome|histone acetyltransferase complex	androgen receptor binding|beta-catenin binding|DNA binding|histone acetyltransferase activity|RNA polymerase II activating transcription factor binding|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(22)|large_intestine(13)|breast(9)|central_nervous_system(5)|upper_aerodigestive_tract(4)|pancreas(4)|lung(3)|ovary(2)|stomach(1)|skin(1)	64						AATGTGGTGGAACCGGGGCCG	0.607			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				6	67					0	0	0.001168	0	0	
EP300	2033	broad.mit.edu	37	22	41574331	41574331	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:41574331G>T	uc003azl.3	+	31	7011	c.6616G>T	c.(6616-6618)GCC>TCC	p.A2206S		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300	2206	Interaction with HTLV-1 Tax.|Interaction with NCOA2.				apoptosis|cell cycle|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|histone H4 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of androgen receptor signaling pathway|response to estrogen stimulus|response to hypoxia	centrosome|histone acetyltransferase complex	androgen receptor binding|beta-catenin binding|DNA binding|histone acetyltransferase activity|RNA polymerase II activating transcription factor binding|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(22)|large_intestine(13)|breast(9)|central_nervous_system(5)|upper_aerodigestive_tract(4)|pancreas(4)|lung(3)|ovary(2)|stomach(1)|skin(1)	64						CCCTGGAATGGCCAACCATAA	0.527			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				10	30					1.76689e-08	1.88842e-08	0.006214	1	0	
RANGAP1	5905	broad.mit.edu	37	22	41648913	41648913	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:41648913C>T	uc003azs.2	-	11	2813	c.1343G>A	c.(1342-1344)CGC>CAC	p.R448H	RANGAP1_uc003azt.2_Missense_Mutation_p.R448H|RANGAP1_uc003azu.2_Missense_Mutation_p.R448H|RANGAP1_uc003azr.2_5'UTR|RANGAP1_uc010gyk.2_5'UTR|RANGAP1_uc011aoz.1_Missense_Mutation_p.R393H	NM_002883	NP_002874	P46060	RAGP1_HUMAN	Ran GTPase activating protein 1	448					mitotic prometaphase|signal transduction	condensed chromosome kinetochore|cytosol|nuclear membrane|nuclear pore|soluble fraction|spindle pole	protein binding|Ran GTPase activator activity				0						GGGCCCTAGGCGCAGCAGCTT	0.607													8	17					0	0	0.004482	0	0	
RANGAP1	5905	broad.mit.edu	37	22	41676993	41676993	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:41676993G>A	uc003azs.2	-	1	1526	c.56C>T	c.(55-57)GCC>GTC	p.A19V	RANGAP1_uc003azt.2_Missense_Mutation_p.A19V|RANGAP1_uc003azu.2_Missense_Mutation_p.A19V|RANGAP1_uc011aoz.1_5'Flank	NM_002883	NP_002874	P46060	RAGP1_HUMAN	Ran GTPase activating protein 1	19					mitotic prometaphase|signal transduction	condensed chromosome kinetochore|cytosol|nuclear membrane|nuclear pore|soluble fraction|spindle pole	protein binding|Ran GTPase activator activity				0						CTGTCCCCCGGCCACCTGAGT	0.557													18	36					0	0	0.004990	0	0	
PHF5A	84844	broad.mit.edu	37	22	41863526	41863526	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:41863526G>A	uc003bab.2	-	3	220	c.169C>T	c.(169-171)CGC>TGC	p.R57C	ACO2_uc003bac.2_5'Flank|ACO2_uc003bad.2_5'Flank	NM_032758	NP_116147	Q7RTV0	PHF5A_HUMAN	PHD-finger 5A	57					nuclear mRNA splicing, via spliceosome|positive regulation of transcription, DNA-dependent	nuclear speck|U12-type spliceosomal complex|U2 snRNP	DNA binding|sequence-specific DNA binding transcription factor activity				0						ATCACACAGCGCCCCTGGTAA	0.507													9	51					0	0	0.006214	0	0	
CYP2D7P1	1564	broad.mit.edu	37	22	42537172	42537172	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:42537172C>T	uc003bci.2	-	7	1274	c.893G>A	c.(892-894)CGC>CAC	p.R298H	CYP2D7P1_uc003bcg.2_Missense_Mutation_p.R42H|CYP2D7P1_uc003bch.2_Missense_Mutation_p.R42H|CYP2D7P1_uc010gyv.2_Missense_Mutation_p.R82H|CYP2D7P1_uc010gyw.2_RNA|CYP2D7P1_uc010gyx.1_3'UTR	NR_002570				SubName: Full=Cytochrome P450 2D6;          EC=1.14.14.1;												0						CTTAGGGATGCGGAAGCCCTG	0.607													3	12					0	0	0.004672	0	0	
TCF20	6942	broad.mit.edu	37	22	42609903	42609903	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:42609903A>G	uc003bcj.1	-	1	1543	c.1409T>C	c.(1408-1410)GTC>GCC	p.V470A	TCF20_uc003bck.1_Missense_Mutation_p.V470A|TCF20_uc003bnt.2_Missense_Mutation_p.V470A	NM_005650	NP_005641	Q9UGU0	TCF20_HUMAN	transcription factor 20 isoform 1	470					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(4)|skin(1)	5						CATGTGCTGGACAGTGTTAGG	0.488													29	98					0	0	0.006320	0	0	
TCF20	6942	broad.mit.edu	37	22	42610103	42610103	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:42610103C>T	uc003bcj.1	-	1	1343	c.1209G>A	c.(1207-1209)GTG>GTA	p.V403V	TCF20_uc003bck.1_Silent_p.V403V|TCF20_uc003bnt.2_Silent_p.V403V	NM_005650	NP_005641	Q9UGU0	TCF20_HUMAN	transcription factor 20 isoform 1	403					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(4)|skin(1)	5						AACCCATAGGCACACTGCCTT	0.502													22	74					0	0	0.003330	0	0	
PACSIN2	11252	broad.mit.edu	37	22	43267373	43267373	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:43267373G>A	uc010gzg.2	-	11	1673	c.1451C>T	c.(1450-1452)GCG>GTG	p.A484V	PACSIN2_uc003bdg.3_Missense_Mutation_p.A484V|PACSIN2_uc003bde.3_Missense_Mutation_p.A484V|PACSIN2_uc003bdf.3_Missense_Mutation_p.A443V	NM_007229	NP_009160	Q9UNF0	PACN2_HUMAN	protein kinase C and casein kinase substrate in	484	SH3.				actin cytoskeleton organization|endocytosis	cytoplasmic membrane-bounded vesicle	transporter activity				0		Glioma(61;0.222)				TCACTGGATCGCCTCCACATA	0.627													6	27					0	0	0.003080	0	0	
TTLL1	25809	broad.mit.edu	37	22	43442572	43442572	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:43442572G>A	uc003bdi.2	-	10	1227	c.986C>T	c.(985-987)GCG>GTG	p.A329V	TTLL1_uc010gzh.2_Missense_Mutation_p.A300V|TTLL1_uc003bdj.2_Missense_Mutation_p.A215V|TTLL1_uc003bdh.2_Missense_Mutation_p.A291V	NM_012263	NP_036395	O95922	TTLL1_HUMAN	tubulin tyrosine ligase-like family, member 1	329	TTL.				protein polyglutamylation	cytoplasm|microtubule	ATP binding|tubulin-glutamic acid ligase activity|tubulin-tyrosine ligase activity			skin(1)	1		Ovarian(80;0.0694)		BRCA - Breast invasive adenocarcinoma(115;0.00461)		AGACGGGGACGCATTCACCTG	0.507													5	83					0	0	0.000602	0	0	
SCUBE1	80274	broad.mit.edu	37	22	43634953	43634953	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:43634953G>A	uc003bdt.1	-	7	823	c.735C>T	c.(733-735)TGC>TGT	p.C245C	SCUBE1_uc003bdu.1_Silent_p.C275C	NM_173050	NP_766638	Q8IWY4	SCUB1_HUMAN	signal peptide, CUB domain, EGF-like 1	245	EGF-like 5 (Potential).|EGF-like 6 (Potential).				adult heart development|blood coagulation|endothelial cell differentiation|inflammatory response|post-embryonic development|protein homooligomerization	external side of plasma membrane|extracellular space|extrinsic to plasma membrane	calcium ion binding|identical protein binding|protein heterodimerization activity			central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	5		all_neural(38;0.0414)|Ovarian(80;0.07)				TATTGACTGCGCACGTCTCTG	0.512													4	25					0	0	0.000602	0	0	
PARVB	29780	broad.mit.edu	37	22	44543773	44543773	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:44543773G>A	uc003ben.2	+	9	797	c.745G>A	c.(745-747)GCC>ACC	p.A249T	PARVB_uc003bem.2_Missense_Mutation_p.A282T|PARVB_uc010gzn.2_Missense_Mutation_p.A197T|PARVB_uc003beo.2_Missense_Mutation_p.A212T	NM_013327	NP_037459	Q9HBI1	PARVB_HUMAN	parvin, beta isoform b	249					cell adhesion|cell junction assembly	cytoskeleton|cytosol|focal adhesion	actin binding				0		Ovarian(80;0.0246)|all_neural(38;0.0423)				GTTCGACCACGCCCCGGATAA	0.582													6	22					0	0	0.004482	0	0	
PHF21B	112885	broad.mit.edu	37	22	45279115	45279115	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:45279115G>A	uc003bfn.2	-	13	1598	c.1447C>T	c.(1447-1449)CGG>TGG	p.R483W	PHF21B_uc003bfm.2_Missense_Mutation_p.R279W|PHF21B_uc011aqk.1_Missense_Mutation_p.R429W|PHF21B_uc011aql.1_Missense_Mutation_p.R441W	NM_138415	NP_612424	Q96EK2	PF21B_HUMAN	PHD finger protein 21B isoform 1	483							zinc ion binding			ovary(2)|skin(1)	3		all_neural(38;0.00802)|Glioma(61;0.0353)|Ovarian(80;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0203)		AGGAGGGCCCGCAGGCGGTCC	0.652													6	20					0	0	0.006214	0	0	
FAM118A	55007	broad.mit.edu	37	22	45726536	45726536	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:45726536G>A	uc003bfz.3	+	6	1191	c.575G>A	c.(574-576)GGC>GAC	p.G192D	FAM118A_uc003bga.3_Missense_Mutation_p.G192D|FAM118A_uc011aqr.1_Missense_Mutation_p.G10D	NM_001104595	NP_001098065	Q9NWS6	F118A_HUMAN	hypothetical protein LOC55007	192						integral to membrane					0		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)		CACATTCACGGCCTCTACACG	0.527													12	37					0	0	0.002450	0	0	
RIBC2	26150	broad.mit.edu	37	22	45813802	45813802	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:45813802G>A	uc011aqs.1	+	4	726	c.517G>A	c.(517-519)GCC>ACC	p.A173T		NM_015653	NP_056468	Q9H4K1	RIBC2_HUMAN	RIB43A domain with coiled-coils 2	105											0		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)		ATGGAAGAACGCCCGTGCTGA	0.413													12	33					0	0	0.003163	0	0	
FBLN1	2192	broad.mit.edu	37	22	45938087	45938087	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:45938087C>T	uc003bgj.1	+	10	1266	c.1119C>T	c.(1117-1119)TGC>TGT	p.C373C	FBLN1_uc003bgg.1_Silent_p.C373C|FBLN1_uc003bgh.2_Silent_p.C373C|FBLN1_uc010gzz.2_Silent_p.C411C|FBLN1_uc003bgi.1_Silent_p.C373C	NM_006486	NP_006477	P23142	FBLN1_HUMAN	fibulin 1 isoform D	373	EGF-like 5; calcium-binding.|Self-association and FN1-binding; calcium is necessary for homotypic binding, but not for heterotypic binding.				interspecies interaction between organisms	extracellular space|soluble fraction	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		GACATCGCTGCGTGAACTCTC	0.567													25	44					0	0	0.007291	0	0	
PKDREJ	10343	broad.mit.edu	37	22	46655302	46655302	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:46655302C>T	uc003bhh.2	-	1	3918	c.3918G>A	c.(3916-3918)TCG>TCA	p.S1306S		NM_006071	NP_006062	Q9NTG1	PKDRE_HUMAN	receptor for egg jelly-like protein precursor	1306	Cytoplasmic (Potential).|PLAT.				acrosome reaction|neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity			breast(3)|ovary(2)	5		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		ACCAGCTAGGCGATCGACCCT	0.458													34	76					0	0	0.003271	0	0	
GTSE1	51512	broad.mit.edu	37	22	46712231	46712231	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:46712231C>T	uc011aqy.1	+	7	1566	c.1354C>T	c.(1354-1356)CGA>TGA	p.R452*	GTSE1_uc011aqz.1_Nonsense_Mutation_p.R299*|GTSE1_uc003bhl.1_Nonsense_Mutation_p.R77*|GTSE1_uc003bhm.1_Nonsense_Mutation_p.R77*	NM_016426	NP_057510	Q9NYZ3	GTSE1_HUMAN	G-2 and S-phase expressed 1	433					DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G2 phase of mitotic cell cycle|microtubule-based process	cytoplasmic microtubule				ovary(1)	1		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00462)		TATCAGACGGCGAGATTCCTG	0.418													14	176					0	0	0.002450	0	0	
GRAMD4	23151	broad.mit.edu	37	22	47070572	47070572	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:47070572G>A	uc003bhx.2	+	15	1442	c.1403G>A	c.(1402-1404)CGC>CAC	p.R468H	GRAMD4_uc010had.2_Missense_Mutation_p.R407H|GRAMD4_uc003bhy.2_5'UTR	NM_015124	NP_055939	Q6IC98	GRAM4_HUMAN	death-inducing-protein	468	GRAM.				apoptosis	integral to membrane|mitochondrial membrane				ovary(1)	1		Breast(42;0.00571)|Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)|BRCA - Breast invasive adenocarcinoma(115;0.166)		AATGGCTGGCGCTGCTGCCTC	0.617													5	18					0	0	0.001168	0	0	
GRAMD4	23151	broad.mit.edu	37	22	47070595	47070595	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:47070595C>T	uc003bhx.2	+	15	1465	c.1426C>T	c.(1426-1428)CGG>TGG	p.R476W	GRAMD4_uc010had.2_Missense_Mutation_p.R415W|GRAMD4_uc003bhy.2_5'UTR	NM_015124	NP_055939	Q6IC98	GRAM4_HUMAN	death-inducing-protein	476	GRAM.				apoptosis	integral to membrane|mitochondrial membrane				ovary(1)	1		Breast(42;0.00571)|Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)|BRCA - Breast invasive adenocarcinoma(115;0.166)		CAACAGGGACCGGAAGATGCC	0.627													8	33					0	0	0.006214	0	0	
TBC1D22A	25771	broad.mit.edu	37	22	47290699	47290699	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:47290699G>A	uc003bib.2	+	7	992	c.857G>A	c.(856-858)CGC>CAC	p.R286H	TBC1D22A_uc010haf.2_Missense_Mutation_p.R256H|TBC1D22A_uc003bic.2_Missense_Mutation_p.R227H|TBC1D22A_uc003bie.2_Missense_Mutation_p.R208H|TBC1D22A_uc003bid.2_RNA|TBC1D22A_uc010hag.2_RNA|TBC1D22A_uc003bif.2_Missense_Mutation_p.R239H	NM_014346	NP_055161	Q8WUA7	TB22A_HUMAN	TBC1 domain family, member 22A	286	Rab-GAP TBC.					intracellular	protein homodimerization activity|Rab GTPase activator activity			ovary(1)	1		all_cancers(38;4.44e-05)|all_epithelial(38;0.000507)|Breast(42;0.0488)|all_lung(38;0.0682)|Ovarian(80;0.0731)|all_neural(38;0.0966)|Glioma(61;0.222)|Lung SC(80;0.236)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0347)|BRCA - Breast invasive adenocarcinoma(115;0.231)		GACATCCCTCGCATGAGCCCT	0.502													8	82					0	0	0.008291	0	0	
TBC1D22A	25771	broad.mit.edu	37	22	47569246	47569246	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:47569246G>A	uc003bib.2	+	13	1666	c.1531G>A	c.(1531-1533)GCC>ACC	p.A511T	TBC1D22A_uc010haf.2_Missense_Mutation_p.A481T|TBC1D22A_uc003bic.2_Missense_Mutation_p.A452T|TBC1D22A_uc003bie.2_Missense_Mutation_p.A433T|TBC1D22A_uc003bid.2_RNA|TBC1D22A_uc010hag.2_RNA|TBC1D22A_uc003bif.2_Missense_Mutation_p.A464T	NM_014346	NP_055161	Q8WUA7	TB22A_HUMAN	TBC1 domain family, member 22A	511						intracellular	protein homodimerization activity|Rab GTPase activator activity			ovary(1)	1		all_cancers(38;4.44e-05)|all_epithelial(38;0.000507)|Breast(42;0.0488)|all_lung(38;0.0682)|Ovarian(80;0.0731)|all_neural(38;0.0966)|Glioma(61;0.222)|Lung SC(80;0.236)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0347)|BRCA - Breast invasive adenocarcinoma(115;0.231)		TTTTGCCGACGCCCCCAATCA	0.647													14	51					0	0	0.001882	0	0	
FAM19A5	25817	broad.mit.edu	37	22	49103572	49103572	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:49103572T>C	uc003bim.3	+	3	423	c.306T>C	c.(304-306)TGT>TGC	p.C102C	FAM19A5_uc003bio.3_Silent_p.C95C	NM_001082967	NP_001076436	Q7Z5A7	F19A5_HUMAN	family with sequence similarity 19 (chemokine	102						extracellular region|integral to membrane				large_intestine(1)	1		all_cancers(38;2.95e-11)|all_epithelial(38;3.07e-10)|all_lung(38;2.89e-05)|Breast(42;0.000396)|Lung NSC(38;0.000471)|Ovarian(80;0.00934)|Lung SC(80;0.195)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0227)|BRCA - Breast invasive adenocarcinoma(115;0.119)		TGCTTCCGTGTCTGGAGGGGG	0.572													6	25					0	0	0.003080	0	0	
ZBED4	9889	broad.mit.edu	37	22	50277562	50277562	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:50277562C>T	uc003bix.2	+	2	722	c.252C>T	c.(250-252)GGC>GGT	p.G84G		NM_014838	NP_055653	O75132	ZBED4_HUMAN	zinc finger, BED-type containing 4	84						cytoplasm|nucleus	DNA binding|metal ion binding|protein dimerization activity			ovary(2)	2		all_cancers(38;8.58e-10)|all_epithelial(38;1.15e-08)|all_lung(38;0.000109)|Lung NSC(38;0.0018)|Breast(42;0.00191)|Ovarian(80;0.0164)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.168)|BRCA - Breast invasive adenocarcinoma(115;0.2)|LUAD - Lung adenocarcinoma(64;0.247)		ATGACTATGGCGCGCTGTTCT	0.622													18	44					0	0	0.001882	0	0	
TTLL8	164714	broad.mit.edu	37	22	50470406	50470406	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:50470406G>A	uc011ark.1	-	11	1416	c.1416C>T	c.(1414-1416)GGC>GGT	p.G472G		NM_001080447	NP_001073916			tubulin tyrosine ligase-like family, member 8											ovary(2)	2		all_cancers(38;3.44e-07)|all_epithelial(38;2.44e-06)|all_lung(38;0.00141)|Breast(42;0.00519)|Lung NSC(38;0.0199)|Ovarian(80;0.142)|Lung SC(80;0.162)		READ - Rectum adenocarcinoma(2;0.000882)|Colorectal(2;0.00311)|BRCA - Breast invasive adenocarcinoma(115;0.226)		CCCACACGGCGCCACGGCCCT	0.637													4	12					0	0	0.009096	0	0	
TRABD	80305	broad.mit.edu	37	22	50636522	50636522	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:50636522T>C	uc003bjq.1	+	9	949	c.863T>C	c.(862-864)GTC>GCC	p.V288A	TRABD_uc003bjr.1_Missense_Mutation_p.V172A|TRABD_uc003bjs.1_Missense_Mutation_p.V288A|TRABD_uc003bjt.1_Missense_Mutation_p.V288A|TRABD_uc003bju.1_Missense_Mutation_p.V288A|TRABD_uc003bjv.2_Missense_Mutation_p.V288A|TRABD_uc003bjw.1_Missense_Mutation_p.V288A|SELO_uc011arr.1_5'Flank	NM_025204	NP_079480	Q9H4I3	TRABD_HUMAN	TraB domain containing	288											0		all_cancers(38;1.07e-07)|all_epithelial(38;9.6e-07)|all_lung(38;0.00141)|Breast(42;0.00387)|Lung NSC(38;0.0199)|Ovarian(80;0.142)|Lung SC(80;0.162)		LUAD - Lung adenocarcinoma(64;0.105)		AGGAAGTGCGTCCCCTCCGTG	0.667													5	6					0	0	0.001168	0	0	
SELO	83642	broad.mit.edu	37	22	50647109	50647109	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:50647109C>T	uc011arr.1	+	3	961	c.903C>T	c.(901-903)AGC>AGT	p.S301S	SELO_uc010hap.2_Silent_p.S112S|SELO_uc003bjy.2_5'UTR|SELO_uc003bjz.2_5'Flank	NM_031454	NP_113642	Q9BVL4	SELO_HUMAN	selenoprotein O	301											0		all_cancers(38;1.14e-10)|all_epithelial(38;2.12e-09)|all_lung(38;7.01e-05)|Breast(42;0.000523)|Lung NSC(38;0.0018)|Ovarian(80;0.0365)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.105)		CTCATGCCAGCGACAGCGTGC	0.632													16	33					0	0	0.008871	0	0	
PLXNB2	23654	broad.mit.edu	37	22	50728515	50728515	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:50728515C>T	uc003bkv.3	-	3	605	c.499G>A	c.(499-501)GTG>ATG	p.V167M		NM_012401	NP_036533	O15031	PLXB2_HUMAN	plexin B2 precursor	167	Extracellular (Potential).|Sema.				regulation of small GTPase mediated signal transduction	integral to membrane|intracellular	GTPase activator activity|protein binding|receptor activity			ovary(4)|central_nervous_system(1)|skin(1)	6		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		ACAAACAGCACGCGGTCACCA	0.622													11	24					0	0	0.000978	0	0	
LRRN1	57633	broad.mit.edu	37	3	3888176	3888176	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:3888176C>A	uc003bpt.3	+	2	2612	c.1851C>A	c.(1849-1851)GCC>GCA	p.A617A	SUMF1_uc003bps.1_Intron	NM_020873	NP_065924	Q6UXK5	LRRN1_HUMAN	leucine rich repeat neuronal 1 precursor	617	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1				Epithelial(13;0.000886)|all cancers(10;0.0032)|OV - Ovarian serous cystadenocarcinoma(96;0.00608)|STAD - Stomach adenocarcinoma(44;0.0617)		CCAAAAATGCCGCCTTCGCAG	0.473													41	113					1.22674e-20	1.34442e-20	0.008740	1	0	
ITPR1	3708	broad.mit.edu	37	3	4703860	4703860	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:4703860C>T	uc003bqa.2	+	15	1694	c.1346C>T	c.(1345-1347)GCC>GTC	p.A449V	ITPR1_uc010hca.1_Missense_Mutation_p.A434V|ITPR1_uc011asu.1_Intron|ITPR1_uc010hcb.1_Missense_Mutation_p.A434V	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	449	Cytoplasmic (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		GCCAATGATGCCAGCAAGGTG	0.547													16	50					0	0	0.004990	0	0	
ITPR1	3708	broad.mit.edu	37	3	4735265	4735265	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:4735265G>A	uc003bqa.2	+	33	4442	c.4094G>A	c.(4093-4095)CGG>CAG	p.R1365Q	ITPR1_uc010hca.1_Missense_Mutation_p.R1350Q|ITPR1_uc011asu.1_Intron|ITPR1_uc003bqc.2_Missense_Mutation_p.R296Q	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	1374	Cytoplasmic (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		GAACGGGATCGGATGGATGAG	0.512													37	74					0	0	0.004289	0	0	
ITPR1	3708	broad.mit.edu	37	3	4808340	4808340	+	Nonsense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:4808340G>T	uc003bqa.2	+	42	5875	c.5527G>T	c.(5527-5529)GGA>TGA	p.G1843*	ITPR1_uc010hca.1_Nonsense_Mutation_p.G1828*|ITPR1_uc011asu.1_Intron|ITPR1_uc003bqc.2_Nonsense_Mutation_p.G813*	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	1891	Cytoplasmic (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		CAGTGACTTGGGAAATAAAAA	0.428													29	76					1.04352e-10	1.1238e-10	0.003755	1	0	
ITPR1	3708	broad.mit.edu	37	3	4825528	4825528	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:4825528G>A	uc003bqa.2	+	48	6743	c.6395G>A	c.(6394-6396)AGC>AAC	p.S2132N	ITPR1_uc010hca.1_Missense_Mutation_p.S2117N|ITPR1_uc011asu.1_Intron|ITPR1_uc003bqc.2_Missense_Mutation_p.S1102N	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	2180	Cytoplasmic (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		GAACTTCAGAGCATGCTGAAA	0.488													12	26					0	0	0.001368	0	0	
GRM7	2917	broad.mit.edu	37	3	7188283	7188283	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:7188283T>C	uc003bqm.2	+	2	938	c.664T>C	c.(664-666)TCT>CCT	p.S222P	GRM7_uc011ata.1_RNA|GRM7_uc011atb.1_RNA|GRM7_uc010hcf.2_RNA|GRM7_uc011atc.1_RNA|GRM7_uc010hcg.2_Missense_Mutation_p.S222P|GRM7_uc003bql.2_Missense_Mutation_p.S222P	NM_000844	NP_000835	Q14831	GRM7_HUMAN	glutamate receptor, metabotropic 7 isoform a	222	Extracellular (Potential).				negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding			ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)	GAATTATGTGTCTACCCTCGC	0.522													25	60					0	0	0.006320	0	0	
C3orf32	51066	broad.mit.edu	37	3	8667298	8667298	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:8667298C>T	uc003bqu.2	-	10	983	c.737G>A	c.(736-738)CGG>CAG	p.R246Q	C3orf32_uc003bqz.2_Missense_Mutation_p.R246Q|C3orf32_uc003bqt.2_Missense_Mutation_p.R195Q|C3orf32_uc011atg.1_Missense_Mutation_p.R268Q|C3orf32_uc003bqv.2_Missense_Mutation_p.R195Q|C3orf32_uc003bqw.2_RNA|C3orf32_uc003bqx.2_RNA|C3orf32_uc003bqy.2_Missense_Mutation_p.R246Q	NM_015931	NP_057015	Q9Y2M2	CC032_HUMAN	hypothetical protein LOC51066	246										skin(1)	1						GCAGTTGAGCCGGTGCTCAGA	0.418													13	29					0	0	0.003163	0	0	
SETD5	55209	broad.mit.edu	37	3	9476021	9476021	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:9476021A>G	uc003brt.2	+	5	616	c.181A>G	c.(181-183)ATC>GTC	p.I61V	SETD5_uc003brs.1_Missense_Mutation_p.I42V|SETD5_uc003bru.2_5'UTR|SETD5_uc003brv.2_5'UTR	NM_001080517	NP_001073986	Q9C0A6	SETD5_HUMAN	SET domain containing 5	61										ovary(2)	2	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.112)		TGTCCAGACGATCATCCCTCG	0.517													16	42					0	0	0.004990	0	0	
LHFPL4	375323	broad.mit.edu	37	3	9547876	9547876	+	Missense_Mutation	SNP	C	T	T	rs148006358		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:9547876C>T	uc003bry.2	-	3	704	c.418G>A	c.(418-420)GTC>ATC	p.V140I		NM_198560	NP_940962	Q7Z7J7	LHPL4_HUMAN	lipoma HMGIC fusion partner-like 4	140	Helical; (Potential).					integral to membrane				ovary(2)|skin(1)	3	Medulloblastoma(99;0.227)					CAGCCCAGGACGAGGCACAGA	0.617													12	29					0	0	0.001855	0	0	
LHFPL4	375323	broad.mit.edu	37	3	9594078	9594078	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:9594078C>T	uc003bry.2	-	2	572	c.286G>A	c.(286-288)GCC>ACC	p.A96T		NM_198560	NP_940962	Q7Z7J7	LHPL4_HUMAN	lipoma HMGIC fusion partner-like 4	96						integral to membrane				ovary(2)|skin(1)	3	Medulloblastoma(99;0.227)					ACGAAGAAGGCGGCCGCCTTG	0.632													6	14					0	0	0.003080	0	0	
OGG1	4968	broad.mit.edu	37	3	9792752	9792752	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:9792752G>A	uc003bsi.2	+	2	604	c.261G>A	c.(259-261)AGG>AGA	p.R87R	OGG1_uc003bsh.2_Silent_p.R87R|OGG1_uc003bsj.2_Silent_p.R87R|OGG1_uc003bsk.2_Silent_p.R87R|OGG1_uc003bsl.2_Silent_p.R87R|OGG1_uc003bsm.2_Silent_p.R87R|OGG1_uc003bsn.2_Silent_p.R87R|OGG1_uc003bso.2_Silent_p.R87R|OGG1_uc003bsp.1_5'Flank|OGG1_uc010hcm.1_5'Flank|OGG1_uc003bsq.1_5'Flank|OGG1_uc003bsr.1_5'Flank	NM_002542	NP_002533	O15527	OGG1_HUMAN	8-oxoguanine DNA-glycosylase 1 isoform 1a	87					depurination|nucleotide-excision repair|regulation of protein import into nucleus, translocation|regulation of transcription, DNA-dependent|response to oxidative stress|response to radiation	mitochondrion|nuclear matrix|nuclear speck	damaged DNA binding|endonuclease activity|oxidized purine base lesion DNA N-glycosylase activity|protein binding				0	Medulloblastoma(99;0.227)					AGGCTAGCAGGCCCACACCAG	0.572								BER_DNA_glycosylases					4	16					0	0	0.009096	0	0	
CRELD1	78987	broad.mit.edu	37	3	9982689	9982689	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:9982689G>A	uc003bug.2	+	6	734	c.616G>A	c.(616-618)GCC>ACC	p.A206T	CIDEC_uc003bto.2_Intron|CRELD1_uc003buf.2_Missense_Mutation_p.A206T|CRELD1_uc003buh.2_Missense_Mutation_p.A206T|CRELD1_uc003bui.2_Missense_Mutation_p.A206T|CRELD1_uc003buj.2_RNA	NM_001077415	NP_001070883	Q96HD1	CREL1_HUMAN	cysteine-rich with EGF-like domains 1 isoform 3	206	Extracellular (Potential).				cardiac septum development|endocardial cushion development	integral to membrane	calcium ion binding			ovary(1)	1						AGAACGCAACGCCAGCCATCT	0.642													10	21					0	0	0.001368	0	0	
FANCD2	2177	broad.mit.edu	37	3	10084330	10084330	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:10084330G>A	uc003buw.2	+	11	949	c.871G>A	c.(871-873)GCC>ACC	p.A291T	FANCD2_uc003bux.1_Missense_Mutation_p.A291T|FANCD2_uc003buy.1_Missense_Mutation_p.A291T	NM_033084	NP_149075	Q9BXW9	FACD2_HUMAN	Fanconi anemia complementation group D2 isoform	291	Interaction with FANCE.|Interaction with BRCA2.				DNA repair|response to gamma radiation	nucleoplasm	protein binding|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(96;0.148)		TTCCGTAACAGCCATGGATAC	0.383			D|Mis|N|F			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				23	99					0	0	0.005443	0	0	
SLC6A1	6529	broad.mit.edu	37	3	11067198	11067198	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:11067198A>G	uc010hdq.2	+	8	1189	c.778A>G	c.(778-780)ACG>GCG	p.T260A		NM_003042	NP_003033	P30531	SC6A1_HUMAN	solute carrier family 6 (neurotransmitter	260					neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity			ovary(1)|skin(1)	2		Ovarian(110;0.0392)		OV - Ovarian serous cystadenocarcinoma(96;0.00099)	Cocaine(DB00907)|Tiagabine(DB00906)	CCGTGGAGTGACGCTGCCCGG	0.582													7	31					0	0	0.003080	0	0	
ATG7	10533	broad.mit.edu	37	3	11372822	11372822	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:11372822T>C	uc003bwc.2	+	8	804	c.687T>C	c.(685-687)ATT>ATC	p.I229I	ATG7_uc003bwd.2_Silent_p.I229I|ATG7_uc011aum.1_Silent_p.I190I	NM_006395	NP_006386	O95352	ATG7_HUMAN	APG7 autophagy 7-like isoform a	229					autophagy|cellular membrane fusion|positive regulation of protein modification process|protein lipidation|protein transport	cytoplasm	APG12 activating enzyme activity|protein homodimerization activity|ubiquitin activating enzyme activity			central_nervous_system(1)	1						AGATAACAATTGGTGTATATG	0.403													48	126					0	0	0.003610	0	0	
VGLL4	9686	broad.mit.edu	37	3	11643341	11643341	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:11643341C>T	uc003bwf.2	-	3	586	c.220G>A	c.(220-222)GTC>ATC	p.V74I	VGLL4_uc010hdx.1_Missense_Mutation_p.V80I|VGLL4_uc003bwg.2_Missense_Mutation_p.V79I|VGLL4_uc011aun.1_Missense_Mutation_p.V15I	NM_014667	NP_055482	Q14135	VGLL4_HUMAN	vestigial like 4 isoform b	74					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1				LUSC - Lung squamous cell carcinoma(1;0.089)|Lung(1;0.111)		ATTTTGGAGACGTGGTCGTTG	0.547													24	87					0	0	0.006320	0	0	
Unknown	0	broad.mit.edu	37	3	12299731	12299731	+	RNA	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:12299731C>T	uc003bwp.1	-	1		c.222G>A				NR_003112				NR_003112																		CGCAGGATGGCGTTGCTCTGG	0.502													8	166					0	0	0.006214	0	0	
TSEN2	80746	broad.mit.edu	37	3	12544798	12544798	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:12544798C>T	uc003bxc.2	+	5	733	c.346C>T	c.(346-348)CGT>TGT	p.R116C	TSEN2_uc003bwy.2_Missense_Mutation_p.R116C|TSEN2_uc003bwz.2_Missense_Mutation_p.R116C|TSEN2_uc003bxa.2_Missense_Mutation_p.R116C|TSEN2_uc011auq.1_Missense_Mutation_p.R116C|TSEN2_uc003bxb.2_Missense_Mutation_p.R116C|TSEN2_uc011aur.1_Missense_Mutation_p.R25C	NM_025265	NP_079541	Q8NCE0	SEN2_HUMAN	tRNA-intron nuclease 2 isoform 1	116					mRNA processing|tRNA splicing, via endonucleolytic cleavage and ligation	cytoplasm|nucleolus|tRNA-intron endonuclease complex	nucleic acid binding|tRNA-intron endonuclease activity			central_nervous_system(1)	1						AGAGCTGATGCGTAGACAGGG	0.443													15	57					0	0	0.001882	0	0	
TSEN2	80746	broad.mit.edu	37	3	12570415	12570415	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:12570415C>T	uc003bxc.2	+	9	1515	c.1128C>T	c.(1126-1128)TAC>TAT	p.Y376Y	TSEN2_uc003bwy.2_Silent_p.Y376Y|TSEN2_uc003bwz.2_Silent_p.Y317Y|TSEN2_uc003bxa.2_Silent_p.Y350Y|TSEN2_uc011auq.1_Silent_p.Y350Y|TSEN2_uc003bxb.2_Silent_p.Y376Y|TSEN2_uc011aur.1_Silent_p.Y285Y	NM_025265	NP_079541	Q8NCE0	SEN2_HUMAN	tRNA-intron nuclease 2 isoform 1	376					mRNA processing|tRNA splicing, via endonucleolytic cleavage and ligation	cytoplasm|nucleolus|tRNA-intron endonuclease complex	nucleic acid binding|tRNA-intron endonuclease activity			central_nervous_system(1)	1						CTCCATTTTACCATGCAAGGT	0.353													9	80					0	0	0.008291	0	0	
RAF1	5894	broad.mit.edu	37	3	12647737	12647737	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:12647737G>A	uc003bxf.3	-	6	1058	c.643C>T	c.(643-645)CGT>TGT	p.R215C	RAF1_uc011aut.1_Intron|RAF1_uc011auu.1_Missense_Mutation_p.R133C	NM_002880	NP_002871	P04049	RAF1_HUMAN	v-raf-1 murine leukemia viral oncogene homolog	215					activation of MAPKK activity|apoptosis|axon guidance|cell proliferation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|negative regulation of apoptosis|negative regulation of cell proliferation|negative regulation of protein complex assembly|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of peptidyl-serine phosphorylation|Ras protein signal transduction|synaptic transmission	cytosol|mitochondrial outer membrane|plasma membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|receptor signaling protein activity		ESRP1/RAF1(4)|SRGAP3/RAF1(4)	central_nervous_system(4)|prostate(4)|lung(2)|upper_aerodigestive_tract(1)|stomach(1)|liver(1)|ovary(1)	14					Sorafenib(DB00398)	CGCATACGACGCATAGTCAAA	0.418			T	SRGAP3	pilocytic astrocytoma				Noonan_syndrome				22	45					0	0	0.003954	0	0	
NUP210	23225	broad.mit.edu	37	3	13381431	13381431	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:13381431C>T	uc003bxv.1	-	25	3477	c.3394G>A	c.(3394-3396)GCC>ACC	p.A1132T		NM_024923	NP_079199	Q8TEM1	PO210_HUMAN	nucleoporin 210 precursor	1132	Lumenal (Probable).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore				ovary(3)|large_intestine(3)|skin(3)|pancreas(1)|liver(1)	11	all_neural(104;0.187)					TTCCCGATGGCGAGGCCCTGT	0.493													16	56					0	0	0.002299	0	0	
NUP210	23225	broad.mit.edu	37	3	13415302	13415302	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:13415302G>A	uc003bxv.1	-	12	1586	c.1503C>T	c.(1501-1503)GGC>GGT	p.G501G	NUP210_uc003bxx.2_Silent_p.G173G	NM_024923	NP_079199	Q8TEM1	PO210_HUMAN	nucleoporin 210 precursor	501	Lumenal (Probable).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore				ovary(3)|large_intestine(3)|skin(3)|pancreas(1)|liver(1)	11	all_neural(104;0.187)					TGGTCATCACGCCCTTGACAG	0.567													6	26					0	0	0.001984	0	0	
HDAC11	79885	broad.mit.edu	37	3	13546068	13546068	+	Missense_Mutation	SNP	G	A	A	rs142419489		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:13546068G>A	uc003bxy.2	+	10	1062	c.929G>A	c.(928-930)CGC>CAC	p.R310H	HDAC11_uc010heb.2_3'UTR|HDAC11_uc011aux.1_Missense_Mutation_p.R118H|HDAC11_uc011auy.1_Missense_Mutation_p.R259H	NM_024827	NP_079103	Q96DB2	HDA11_HUMAN	histone deacetylase 11 isoform 1	310	Histone deacetylase.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	histone deacetylase complex|plasma membrane	histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|transcription factor binding			ovary(2)	2						CGCACAGCCCGCATCATTGCT	0.612													14	20					0	0	0.003163	0	0	
WNT7A	7476	broad.mit.edu	37	3	13896046	13896046	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:13896046T>A	uc003bye.1	-	3	858	c.553A>T	c.(553-555)AAC>TAC	p.N185Y		NM_004625	NP_004616	O00755	WNT7A_HUMAN	wingless-type MMTV integration site family,	185					activation of JUN kinase activity|anterior/posterior pattern formation|canonical Wnt receptor signaling pathway|cell proliferation in forebrain|cellular response to transforming growth factor beta stimulus|central nervous system vasculogenesis|cerebellar granule cell differentiation|dorsal/ventral pattern formation|embryonic axis specification|embryonic digit morphogenesis|embryonic forelimb morphogenesis|embryonic leg morphogenesis|lens fiber cell development|negative regulation of neurogenesis|palate development|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of JNK cascade|positive regulation of synaptogenesis|positive regulation of transcription from RNA polymerase II promoter|regulation of axon diameter|satellite cell activation|satellite cell maintenance involved in skeletal muscle regeneration|sex differentiation|uterus development|Wnt receptor signaling pathway involved in wound healing, spreading of epidermal cells|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	cytokine activity|frizzled binding|receptor agonist activity|signal transducer activity			ovary(2)|breast(1)	3						CCTGCCTCGTTGTTGTGCAAG	0.483													5	142					0	0	0.001168	0	0	
C3orf20	84077	broad.mit.edu	37	3	14724291	14724291	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:14724291G>A	uc003byy.2	+	3	475	c.71G>A	c.(70-72)CGC>CAC	p.R24H	C3orf20_uc003byz.2_Intron|C3orf20_uc003bza.2_Intron|C3orf20_uc003byx.1_Missense_Mutation_p.R24H	NM_032137	NP_115513	Q8ND61	CC020_HUMAN	hypothetical protein LOC84077	24						cytoplasm|integral to membrane				ovary(3)|skin(1)	4						CTACTGGCCCGCATCTCCAAA	0.463													12	104					0	0	0.001368	0	0	
ZFYVE20	64145	broad.mit.edu	37	3	15116081	15116081	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:15116081C>A	uc003bzm.1	-	14	2177	c.1563G>T	c.(1561-1563)CAG>CAT	p.Q521H	ZFYVE20_uc010hek.1_Missense_Mutation_p.Q521H	NM_022340	NP_071735	Q9H1K0	RBNS5_HUMAN	FYVE-finger-containing Rab5 effector protein	521	Potential.|Necessary for the interaction with EHD1.				blood coagulation|endosome transport|protein transport	early endosome membrane|plasma membrane	protein binding|zinc ion binding			skin(2)	2						ACATCTGCAGCTGTTCCCGCT	0.607													19	66					9.57634e-11	1.03153e-10	0.003330	1	0	
ZFYVE20	64145	broad.mit.edu	37	3	15123940	15123940	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:15123940C>T	uc003bzm.1	-	9	1388	c.774G>A	c.(772-774)ACG>ACA	p.T258T	ZFYVE20_uc010hek.1_Silent_p.T258T|ZFYVE20_uc011avn.1_Intron	NM_022340	NP_071735	Q9H1K0	RBNS5_HUMAN	FYVE-finger-containing Rab5 effector protein	258	FYVE-type.|Necessary for the correct targeting to endosomes.				blood coagulation|endosome transport|protein transport	early endosome membrane|plasma membrane	protein binding|zinc ion binding			skin(2)	2						TCTTGAGCAGCGTGTCCTTGC	0.562													14	40					0	0	0.004990	0	0	
CAPN7	23473	broad.mit.edu	37	3	15269407	15269407	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:15269407C>T	uc003bzn.2	+	7	1057	c.787C>T	c.(787-789)CGA>TGA	p.R263*		NM_014296	NP_055111	Q9Y6W3	CAN7_HUMAN	calpain 7	263	Calpain catalytic.				proteolysis	nucleus	calcium-dependent cysteine-type endopeptidase activity			ovary(1)	1						CAAGTGGGTACGACCAGAAGA	0.313													17	35					0	0	0.010504	0	0	
HACL1	26061	broad.mit.edu	37	3	15609981	15609981	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:15609981T>C	uc003caf.2	-	13	1368	c.1208A>G	c.(1207-1209)GAC>GGC	p.D403G	HACL1_uc011avr.1_RNA|HACL1_uc011avs.1_Missense_Mutation_p.D376G|HACL1_uc011avt.1_Missense_Mutation_p.D343G|HACL1_uc003cag.2_Missense_Mutation_p.D47G|HACL1_uc011avu.1_Missense_Mutation_p.D321G|HACL1_uc010hep.2_Missense_Mutation_p.D162G	NM_012260	NP_036392	Q9UJ83	HACL1_HUMAN	2-hydroxyphytanoyl-CoA lyase	403	Thiamine pyrophosphate binding.				fatty acid alpha-oxidation	peroxisomal matrix	carbon-carbon lyase activity|identical protein binding|magnesium ion binding|thiamine pyrophosphate binding				0						CCGTCCAATGTCCATAGTATT	0.368													7	120					0	0	0.004482	0	0	
RFTN1	23180	broad.mit.edu	37	3	16358554	16358554	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:16358554C>A	uc003cay.2	-	10	1800	c.1518G>T	c.(1516-1518)GAG>GAT	p.E506D	RFTN1_uc010hes.2_Missense_Mutation_p.E470D|OXNAD1_uc003cax.2_Intron|OXNAD1_uc011awb.1_Intron	NM_015150	NP_055965	Q14699	RFTN1_HUMAN	raft-linking protein	506						plasma membrane				ovary(3)|central_nervous_system(1)	4						CCTTCATCTCCTCGGAGACTC	0.552													6	49					3.59834e-05	3.78692e-05	0.001168	1	0	
KCNH8	131096	broad.mit.edu	37	3	19190212	19190212	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:19190212A>T	uc003cbk.1	+	1	196	c.1A>T	c.(1-3)ATG>TTG	p.M1L	KCNH8_uc011awe.1_Missense_Mutation_p.M1L|KCNH8_uc010hex.1_5'UTR	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	1	Cytoplasmic (Potential).					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						CGCTGGAAAAATGCCGGTTAT	0.502													40	84					0	0	0.007835	0	0	
TOP2B	7155	broad.mit.edu	37	3	25668727	25668727	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:25668727C>T	uc011awn.1	-	16	2010	c.1967G>A	c.(1966-1968)CGC>CAC	p.R656H	TOP2B_uc003cdj.2_Missense_Mutation_p.R651H	NM_001068	NP_001059	Q02880	TOP2B_HUMAN	DNA topoisomerase II, beta isozyme	656					DNA topological change|DNA-dependent DNA replication|mitotic cell cycle G2/M transition decatenation checkpoint|mitotic recombination|resolution of meiotic recombination intermediates|sister chromatid segregation	cytosol|DNA topoisomerase complex (ATP-hydrolyzing)|nucleolus|nucleoplasm|synaptonemal complex|WINAC complex	ATP binding|chromatin binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA-dependent ATPase activity|histone deacetylase binding|protein C-terminus binding|protein heterodimerization activity|protein kinase C binding|sequence-specific DNA binding transcription factor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5						AAACAAGATGCGATGCCTTTC	0.353													26	145					0	0	0.004656	0	0	
LRRC3B	116135	broad.mit.edu	37	3	26751777	26751777	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:26751777C>T	uc003cdp.2	+	2	1203	c.614C>T	c.(613-615)GCC>GTC	p.A205V	LRRC3B_uc003cdq.2_Missense_Mutation_p.A205V	NM_052953	NP_443185	Q96PB8	LRC3B_HUMAN	leucine rich repeat containing 3B precursor	205	Helical; (Potential).					integral to membrane				pancreas(2)|ovary(1)|skin(1)	4						ACCGATTATGCCATGCTGGTC	0.468													6	30					0	0	0.003080	0	0	
NEK10	152110	broad.mit.edu	37	3	27244008	27244008	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:27244008C>A	uc010hfk.2	-	3	296	c.67G>T	c.(67-69)GAT>TAT	p.D23Y	NEK10_uc003cds.1_Missense_Mutation_p.D108Y|NEK10_uc010hfj.2_Missense_Mutation_p.D23Y			Q6ZWH5	NEK10_HUMAN	RecName: Full=Serine/threonine-protein kinase Nek10;          EC=2.7.11.1; AltName: Full=NimA-related protein kinase 10;	711	Protein kinase.						ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(5)|stomach(2)|central_nervous_system(2)|lung(2)|skin(1)|pancreas(1)	13						GCCCAGACATCAGCCTTCTCC	0.488													17	41					1.33834e-09	1.43568e-09	0.007413	1	0	
ZCWPW2	152098	broad.mit.edu	37	3	28476697	28476697	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:28476697C>T	uc003ceh.2	+	4	597	c.429C>T	c.(427-429)GGC>GGT	p.G143G	ZCWPW2_uc003cei.2_Silent_p.G143G|ZCWPW2_uc010hfo.2_5'UTR	NM_001040432	NP_001035522	Q504Y3	ZCPW2_HUMAN	zinc finger, CW type with PWWP domain 2	143	PWWP.						zinc ion binding			ovary(2)	2						AATTCCTGGGCGATCCCCATT	0.378													27	70					0	0	0.008361	0	0	
OSBPL10	114884	broad.mit.edu	37	3	31710298	31710298	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:31710298C>T	uc003cev.2	-	11	2313	c.1932G>A	c.(1930-1932)AAG>AAA	p.K644K	OSBPL10_uc003ceu.1_Silent_p.K401K|OSBPL10_uc011axf.1_Silent_p.K580K	NM_017784	NP_060254	Q9BXB5	OSB10_HUMAN	oxysterol-binding protein-like protein 10	644					lipid transport		lipid binding			skin(1)	1				STAD - Stomach adenocarcinoma(1;0.00406)		TTGGGTTGTGCTTCACTTCTG	0.398													38	125					0	0	0.009718	0	0	
OSBPL10	114884	broad.mit.edu	37	3	31725328	31725328	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:31725328A>G	uc003cev.2	-	9	1905	c.1524T>C	c.(1522-1524)CCT>CCC	p.P508P	OSBPL10_uc003ceu.1_Silent_p.P265P|OSBPL10_uc011axf.1_Silent_p.P444P	NM_017784	NP_060254	Q9BXB5	OSB10_HUMAN	oxysterol-binding protein-like protein 10	508					lipid transport		lipid binding			skin(1)	1				STAD - Stomach adenocarcinoma(1;0.00406)		GACAGCTGGCAGGAGAGCGGG	0.547													13	48					0	0	0.003163	0	0	
CMTM8	152189	broad.mit.edu	37	3	32409470	32409470	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:32409470C>T	uc003cex.2	+	3	722	c.428C>T	c.(427-429)GCG>GTG	p.A143V	CMTM8_uc010hfu.2_Missense_Mutation_p.A85V	NM_178868	NP_849199	Q8IZV2	CKLF8_HUMAN	CKLF-like MARVEL transmembrane domain containing	143	MARVEL.				chemotaxis	extracellular space|integral to membrane	cytokine activity				0						AACAGCTGGGCGGCCTCATCG	0.547													5	52					0	0	0.001984	0	0	
CRTAP	10491	broad.mit.edu	37	3	33174107	33174107	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:33174107A>G	uc003cfl.3	+	5	1103	c.983A>G	c.(982-984)GAC>GGC	p.D328G	CRTAP_uc010hfz.2_Missense_Mutation_p.D285G|CRTAP_uc003cfm.2_Missense_Mutation_p.D149G|CRTAP_uc003cfn.2_Missense_Mutation_p.D149G	NM_006371	NP_006362	O75718	CRTAP_HUMAN	cartilage associated protein precursor	328						proteinaceous extracellular matrix	binding				0						GATCAGAATGACAAGGTCATG	0.502													14	152					0	0	0.002450	0	0	
UBP1	7342	broad.mit.edu	37	3	33453092	33453092	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:33453092C>T	uc003cfq.3	-	5	1066	c.536G>A	c.(535-537)CGC>CAC	p.R179H	UBP1_uc003cfr.3_Missense_Mutation_p.R179H|UBP1_uc010hga.2_Missense_Mutation_p.R179H	NM_014517	NP_055332	Q9NZI7	UBIP1_HUMAN	upstream binding protein 1 (LBP-1a) isoform a	179					negative regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|viral genome replication	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			kidney(2)	2						AGCAGAGGTGCGTTTTGCTGG	0.358													30	86					0	0	0.002445	0	0	
CLASP2	23122	broad.mit.edu	37	3	33592749	33592749	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:33592749G>A	uc003cfu.2	-	29	3502	c.3148C>T	c.(3148-3150)CGG>TGG	p.R1050W	CLASP2_uc003cfs.2_Missense_Mutation_p.R257W|CLASP2_uc003cft.2_RNA|CLASP2_uc010hgb.2_RNA|CLASP2_uc011axt.1_Missense_Mutation_p.R650W	NM_015097	NP_055912	B2RTR1	B2RTR1_HUMAN	CLIP-associating protein 2	1059										ovary(3)|central_nervous_system(1)	4						TATACCTTCCGAACATCAGAA	0.388													13	59					0	0	0.003163	0	0	
CLASP2	23122	broad.mit.edu	37	3	33617676	33617676	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:33617676C>T	uc003cfu.2	-	24	2793	c.2439G>A	c.(2437-2439)GCG>GCA	p.A813A	CLASP2_uc003cfs.2_Silent_p.A13A|CLASP2_uc003cft.2_RNA|CLASP2_uc010hgb.2_RNA|CLASP2_uc011axt.1_Silent_p.A406A	NM_015097	NP_055912	B2RTR1	B2RTR1_HUMAN	CLIP-associating protein 2	814										ovary(3)|central_nervous_system(1)	4						CATCTGCCACCGCCTCCTCCA	0.453													15	53					0	0	0.002450	0	0	
CLASP2	23122	broad.mit.edu	37	3	33729801	33729801	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:33729801G>A	uc003cfu.2	-	4	792	c.438C>T	c.(436-438)GGC>GGT	p.G146G	CLASP2_uc010hgb.2_RNA	NM_015097	NP_055912	B2RTR1	B2RTR1_HUMAN	CLIP-associating protein 2	146										ovary(3)|central_nervous_system(1)	4						ACAGACACACGCCTTCTCGAG	0.303													3	10					0	0	0.001168	0	0	
TRANK1	9881	broad.mit.edu	37	3	36873314	36873314	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:36873314C>T	uc003cgj.2	-	12	6280	c.5978G>A	c.(5977-5979)CGC>CAC	p.R1993H		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	2543					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						CCGGAAGTGGCGATACAGGAG	0.592													19	29					0	0	0.003330	0	0	
TRANK1	9881	broad.mit.edu	37	3	36873381	36873381	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:36873381G>T	uc003cgj.2	-	12	6213	c.5911C>A	c.(5911-5913)CTG>ATG	p.L1971M		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	2521					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						ACCAAGCACAGCACCAGTGTC	0.527													7	85					0.00307968	0.00319789	0.003080	1	0	
TRANK1	9881	broad.mit.edu	37	3	36897695	36897695	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:36897695C>T	uc003cgj.2	-	3	2038	c.1736G>A	c.(1735-1737)GGC>GAC	p.G579D		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	1129					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						TGCAGCTTGGCCGTCCCCTGC	0.493													5	42					0	0	0.001168	0	0	
LRRFIP2	9209	broad.mit.edu	37	3	37095348	37095348	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:37095348C>T	uc003cgp.2	-	29	2583	c.2160G>A	c.(2158-2160)CAG>CAA	p.Q720Q	MLH1_uc011aye.1_Intron|LRRFIP2_uc011ayf.1_Silent_p.Q502Q|LRRFIP2_uc003cgr.2_Silent_p.Q423Q|LRRFIP2_uc003cgs.3_Silent_p.Q423Q|LRRFIP2_uc003cgt.3_Silent_p.Q399Q	NM_006309	NP_006300	Q9Y608	LRRF2_HUMAN	leucine rich repeat (in FLII) interacting	720					Wnt receptor signaling pathway		LRR domain binding			ovary(1)	1						TTTCCTACTGCTGGGCCAGAA	0.522													4	59					0	0	0.000602	0	0	
GOLGA4	2803	broad.mit.edu	37	3	37367797	37367797	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:37367797G>A	uc003cgv.2	+	14	4724	c.4420G>A	c.(4420-4422)GCT>ACT	p.A1474T	GOLGA4_uc010hgr.1_Missense_Mutation_p.A1035T|GOLGA4_uc003cgw.2_Missense_Mutation_p.A1496T|GOLGA4_uc010hgs.2_Intron|GOLGA4_uc003cgx.2_Missense_Mutation_p.A1355T	NM_002078	NP_002069	Q13439	GOGA4_HUMAN	golgi autoantigen, golgin subfamily a, 4	1474	Potential.|Glu-rich.				Golgi to plasma membrane protein transport	Golgi membrane|trans-Golgi network	protein binding			ovary(2)|breast(1)|central_nervous_system(1)	4						ATCAAAGGAAGCTTATGAAAA	0.338													12	99					0	0	0.000978	0	0	
GOLGA4	2803	broad.mit.edu	37	3	37388776	37388776	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:37388776C>T	uc003cgv.2	+	21	6869	c.6565C>T	c.(6565-6567)CGT>TGT	p.R2189C	GOLGA4_uc003cgw.2_Missense_Mutation_p.R2204C|GOLGA4_uc010hgs.2_Intron|GOLGA4_uc003cgx.2_Missense_Mutation_p.R2070C	NM_002078	NP_002069	Q13439	GOGA4_HUMAN	golgi autoantigen, golgin subfamily a, 4	2189	GRIP.				Golgi to plasma membrane protein transport	Golgi membrane|trans-Golgi network	protein binding			ovary(2)|breast(1)|central_nervous_system(1)	4						TATGATGGGTCGTGAGACTAA	0.368													30	60					0	0	0.002445	0	0	
ITGA9	3680	broad.mit.edu	37	3	37559045	37559045	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:37559045G>A	uc003chd.2	+	10	1139	c.1086G>A	c.(1084-1086)GCG>GCA	p.A362A	ITGA9_uc003chc.2_Silent_p.A362A	NM_002207	NP_002198	Q13797	ITA9_HUMAN	integrin, alpha 9 precursor	362	Extracellular (Potential).|FG-GAP 6.				axon guidance|cell adhesion|integrin-mediated signaling pathway	integrin complex	receptor activity			breast(3)|pancreas(1)|lung(1)|skin(1)	6				KIRC - Kidney renal clear cell carcinoma(284;0.165)|Kidney(284;0.197)		CCTACAATGCGCACTTTGGAG	0.532													3	6					0	0	0.004672	0	0	
PLCD1	5333	broad.mit.edu	37	3	38061761	38061761	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:38061761C>T	uc003chn.2	-	2	241	c.117G>A	c.(115-117)GAG>GAA	p.E39E	PLCD1_uc003chm.2_Silent_p.E60E	NM_006225	NP_006216	P51178	PLCD1_HUMAN	phospholipase C, delta 1 isoform 2	39	PH.|Substrate binding (By similarity).				intracellular signal transduction|lipid catabolic process|phospholipid metabolic process	cytoplasm	calcium ion binding|GTPase activating protein binding|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0519)|Kidney(284;0.0653)		TGTAGAAGCGCTCTCTCCTCC	0.597													11	34					0	0	0.002450	0	0	
DLEC1	9940	broad.mit.edu	37	3	38136483	38136483	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:38136483C>T	uc003cho.1	+	13	2054	c.2033C>T	c.(2032-2034)GCC>GTC	p.A678V	DLEC1_uc003chp.1_Missense_Mutation_p.A678V|DLEC1_uc010hgv.1_Missense_Mutation_p.A678V|DLEC1_uc003chr.1_5'UTR|DLEC1_uc010hgx.1_5'Flank|DLEC1_uc003chq.1_Intron	NM_007335	NP_031361	Q9Y238	DLEC1_HUMAN	deleted in lung and esophageal cancer 1 isoform	678					negative regulation of cell proliferation	cytoplasm				ovary(2)|pancreas(2)|central_nervous_system(2)|skin(2)|breast(1)	9				KIRC - Kidney renal clear cell carcinoma(284;0.0664)|Kidney(284;0.0827)		AAGGAGACTGCCTTCTCCATC	0.542													20	39					0	0	0.010504	0	0	
SLC22A14	9389	broad.mit.edu	37	3	38354921	38354921	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:38354921G>A	uc010hhc.1	+	7	1150	c.1108G>A	c.(1108-1110)GAC>AAC	p.D370N	SLC22A14_uc003cib.2_Missense_Mutation_p.D370N|SLC22A14_uc011ayo.1_RNA	NM_004803	NP_004794	Q9Y267	S22AE_HUMAN	organic cation transporter like 4	370	Cytoplasmic (Potential).					integral to plasma membrane	organic cation transmembrane transporter activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.0554)|Kidney(284;0.0696)		CTCTGTCCTGGACTTCTGTAA	0.592													16	62					0	0	0.007413	0	0	
EXOG	9941	broad.mit.edu	37	3	38565787	38565787	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:38565787T>C	uc003cih.2	+	6	1137	c.1041T>C	c.(1039-1041)TAT>TAC	p.Y347Y	EXOG_uc010hhg.2_RNA|EXOG_uc011ayq.1_Silent_p.Y297Y|EXOG_uc003cij.2_Silent_p.Y207Y|EXOG_uc010hhd.2_Silent_p.Y207Y|EXOG_uc010hhe.2_Silent_p.Y207Y|EXOG_uc003cik.2_Silent_p.Y207Y|EXOG_uc010hhf.2_Silent_p.Y207Y|EXOG_uc003cii.2_Silent_p.Y207Y	NM_005107	NP_005098	Q9Y2C4	EXOG_HUMAN	endo/exonuclease (5'-3'), endonuclease G-like	347						mitochondrial inner membrane	endonuclease activity|metal ion binding|nucleic acid binding				0						TGAGTCGCTATGAGAAGAAGC	0.408													5	84					0	0	0.000602	0	0	
CSRNP1	64651	broad.mit.edu	37	3	39186606	39186606	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:39186606C>T	uc003cjg.2	-	3	561	c.347G>A	c.(346-348)CGC>CAC	p.R116H	CSRNP1_uc003cjh.2_Missense_Mutation_p.R116H	NM_033027	NP_149016	Q96S65	CSRN1_HUMAN	AXIN1 up-regulated 1	116					apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(4)|skin(1)	5						AGCACTGTGGCGAAGGGCCAT	0.607													11	23					0	0	0.002450	0	0	
SLC25A38	54977	broad.mit.edu	37	3	39437962	39437962	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:39437962C>T	uc003cjo.2	+	7	1267	c.866C>T	c.(865-867)GCG>GTG	p.A289V		NM_017875	NP_060345	Q96DW6	S2538_HUMAN	solute carrier family 25, member 38	289	Solcar 3.|Helical; Name=6; (Potential).				erythrocyte differentiation|heme biosynthetic process|transport	integral to membrane|mitochondrial inner membrane					0				KIRC - Kidney renal clear cell carcinoma(284;0.0525)|Kidney(284;0.0661)		GCAGCAATGGCGTGGACGGTG	0.527													27	101					0	0	0.005443	0	0	
ENTPD3	956	broad.mit.edu	37	3	40456333	40456333	+	Splice_Site	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:40456333T>C	uc003ckd.3	+	6	689	c.597_splice	c.e6+2	p.E199_splice	ENTPD3_uc010hhy.2_Splice_Site_p.E199_splice|uc003cke.3_Intron	NM_001248	NP_001239	O75355	ENTP3_HUMAN	ectonucleoside triphosphate diphosphohydrolase							integral to membrane	ATP binding|hydrolase activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0605)|Kidney(284;0.0758)		TTCCTGGAGGTGTGTGCAAAC	0.433													64	107					0	0	0.003610	0	0	
ZNF620	253639	broad.mit.edu	37	3	40557940	40557940	+	Silent	SNP	C	T	T	rs139782096	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:40557940C>T	uc003ckk.2	+	5	1004	c.855C>T	c.(853-855)TGC>TGT	p.C285C	ZNF620_uc003ckl.2_Silent_p.C171C	NM_175888	NP_787084	Q6ZNG0	ZN620_HUMAN	zinc finger protein 620	285	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0519)|Kidney(284;0.0653)		GTAAGGAGTGCGGCAAGGCCT	0.443													22	62					0	0	0.002299	0	0	
TRAK1	22906	broad.mit.edu	37	3	42235319	42235319	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:42235319G>A	uc003cky.2	+	9	1120	c.904G>A	c.(904-906)GCA>ACA	p.A302T	TRAK1_uc011azh.1_Missense_Mutation_p.A302T|TRAK1_uc011azi.1_Missense_Mutation_p.A302T|TRAK1_uc003ckz.3_Missense_Mutation_p.A228T|TRAK1_uc011azj.1_Missense_Mutation_p.A228T|TRAK1_uc003cla.2_Missense_Mutation_p.A244T	NM_001042646	NP_001036111	Q9UPV9	TRAK1_HUMAN	OGT(O-Glc-NAc transferase)-interacting protein	302	Potential.|HAP1 N-terminal.				endosome to lysosome transport|protein O-linked glycosylation|protein targeting|regulation of transcription from RNA polymerase II promoter	early endosome|mitochondrion|nucleus				ovary(1)	1						GCTTTAGTGCGCAGTGGAAAA	0.463													33	98					0	0	0.006230	0	0	
TRAK1	22906	broad.mit.edu	37	3	42240734	42240734	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:42240734T>C	uc003cky.2	+	11	1395	c.1179T>C	c.(1177-1179)TCT>TCC	p.S393S	TRAK1_uc011azh.1_Silent_p.S393S|TRAK1_uc011azi.1_Silent_p.S393S|TRAK1_uc003ckz.3_Silent_p.S319S|TRAK1_uc011azj.1_Silent_p.S319S|TRAK1_uc003cla.2_Silent_p.S335S	NM_001042646	NP_001036111	Q9UPV9	TRAK1_HUMAN	OGT(O-Glc-NAc transferase)-interacting protein	393	Interaction with HGS.				endosome to lysosome transport|protein O-linked glycosylation|protein targeting|regulation of transcription from RNA polymerase II promoter	early endosome|mitochondrion|nucleus				ovary(1)	1						AGGCCGAGTCTCCAGACATCA	0.502													4	28					0	0	0.009096	0	0	
SNRK	54861	broad.mit.edu	37	3	43389129	43389129	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:43389129T>C	uc003cms.3	+	7	1710	c.1378T>C	c.(1378-1380)TCC>CCC	p.S460P	SNRK_uc003cmt.3_Missense_Mutation_p.S460P|SNRK_uc010hik.2_Missense_Mutation_p.S460P|SNRK_uc011azr.1_Missense_Mutation_p.S254P	NM_017719	NP_060189	Q9NRH2	SNRK_HUMAN	SNF related kinase	460					myeloid cell differentiation	nucleus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(3)|stomach(1)|breast(1)|skin(1)	6				KIRC - Kidney renal clear cell carcinoma(284;0.0636)|Kidney(284;0.0792)		GAAACCCATGTCCCTCTCAAC	0.547													25	40					0	0	0.005443	0	0	
C3orf23	285343	broad.mit.edu	37	3	44441970	44441970	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:44441970A>G	uc010him.2	+	9	1254	c.1009A>G	c.(1009-1011)ACA>GCA	p.T337A	C3orf23_uc003cnd.3_Missense_Mutation_p.T337A|C3orf23_uc003cne.3_Missense_Mutation_p.T193A	NM_173826	NP_776187	Q8N3R3	CC023_HUMAN	hypothetical protein LOC285343 isoform 1	337						mitochondrion				upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				KIRC - Kidney renal clear cell carcinoma(197;0.0468)|Kidney(197;0.0585)		GCCAGTATTGACACTTGAAGA	0.333													10	62					0	0	0.006214	0	0	
ZNF660	285349	broad.mit.edu	37	3	44635896	44635896	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:44635896A>T	uc003cnl.1	+	3	544	c.211A>T	c.(211-213)ATC>TTC	p.I71F		NM_173658	NP_775929	Q6AZW8	ZN660_HUMAN	zinc finger protein 660	71	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				KIRC - Kidney renal clear cell carcinoma(197;0.0468)|Kidney(197;0.0585)		ACATGAGCGAATCCACACGGG	0.443													33	62					0	0	0.002445	0	0	
KIF15	56992	broad.mit.edu	37	3	44846554	44846554	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:44846554C>T	uc003cnx.3	+	15	1872	c.1723C>T	c.(1723-1725)CCA>TCA	p.P575S	KIF15_uc010hiq.2_Missense_Mutation_p.P478S|KIF15_uc003cny.1_Missense_Mutation_p.P210S	NM_020242	NP_064627	Q9NS87	KIF15_HUMAN	kinesin family member 15	575	Potential.				blood coagulation|cell proliferation|microtubule-based movement|mitosis	centrosome|cytosol|microtubule|plus-end kinesin complex|spindle	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.0099)|KIRC - Kidney renal clear cell carcinoma(197;0.0564)|Kidney(197;0.0707)		TCAGAAAGAGCCATGTTTGTT	0.284													7	62					0	0	0.001984	0	0	
EXOSC7	23016	broad.mit.edu	37	3	45030680	45030680	+	Missense_Mutation	SNP	G	A	A	rs146138646		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:45030680G>A	uc003coi.2	+	2	135	c.106G>A	c.(106-108)GAA>AAA	p.E36K	EXOSC7_uc003coh.1_5'UTR|EXOSC7_uc011bae.1_Missense_Mutation_p.E36K|EXOSC7_uc010his.1_Intron|EXOSC7_uc003coj.2_Missense_Mutation_p.E36K	NM_015004	NP_055819	Q15024	EXOS7_HUMAN	exosome component 7	36					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|rRNA processing	cytosol|exosome (RNase complex)|nucleolus	3'-5'-exoribonuclease activity|protein binding|RNA binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00911)|KIRC - Kidney renal clear cell carcinoma(197;0.0509)|Kidney(197;0.064)		CCGATGTGTCGAAGTGGAAAC	0.527													6	26					0	0	0.001984	0	0	
FYCO1	79443	broad.mit.edu	37	3	46008705	46008705	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:46008705G>A	uc003cpb.3	-	8	2327	c.2121C>T	c.(2119-2121)GGC>GGT	p.G707G	FYCO1_uc011bal.1_Silent_p.G707G	NM_024513	NP_078789	Q9BQS8	FYCO1_HUMAN	FYVE and coiled-coil domain containing 1	707	Potential.				transport	integral to membrane	metal ion binding|protein binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00147)|KIRC - Kidney renal clear cell carcinoma(197;0.0272)|Kidney(197;0.0323)		GCTGACACTCGCCCTCCTTGC	0.612													13	89					0	0	0.004007	0	0	
FYCO1	79443	broad.mit.edu	37	3	46009957	46009957	+	Missense_Mutation	SNP	C	T	T	rs146311777	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:46009957C>T	uc003cpb.3	-	8	1075	c.869G>A	c.(868-870)CGC>CAC	p.R290H	FYCO1_uc011bal.1_Missense_Mutation_p.R290H	NM_024513	NP_078789	Q9BQS8	FYCO1_HUMAN	FYVE and coiled-coil domain containing 1	290					transport	integral to membrane	metal ion binding|protein binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00147)|KIRC - Kidney renal clear cell carcinoma(197;0.0272)|Kidney(197;0.0323)		GCAAGTGAGGCGAACGTTGTC	0.622													17	43					0	0	0.008871	0	0	
CCR5	1234	broad.mit.edu	37	3	46414590	46414590	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:46414590A>G	uc003cpo.3	+	3	319	c.197A>G	c.(196-198)GAC>GGC	p.D66G	CCR5_uc010hjd.2_Missense_Mutation_p.D66G	NM_001100168	NP_001093638	P51681	CCR5_HUMAN	chemokine (C-C motif) receptor 5	66	Cytoplasmic (Potential).				cell-cell signaling|cellular defense response|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|entry into host cell|immune response|inflammatory response|initiation of viral infection	endosome|external side of plasma membrane|integral to plasma membrane	actin binding|C-C chemokine receptor activity|coreceptor activity|phosphatidylinositol phospholipase C activity			lung(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6				BRCA - Breast invasive adenocarcinoma(193;0.00112)|KIRC - Kidney renal clear cell carcinoma(197;0.017)|Kidney(197;0.02)	Maraviroc(DB04835)	AGCATGACTGACATCTACCTG	0.502													36	125					0	0	0.005524	0	0	
MYL3	4634	broad.mit.edu	37	3	46904789	46904789	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:46904789C>T	uc003cql.1	-	1	185	c.92G>A	c.(91-93)CGC>CAC	p.R31H		NM_000258	NP_000249	P08590	MYL3_HUMAN	slow skeletal ventricular myosin alkali light	31					cardiac muscle contraction|muscle filament sliding|positive regulation of ATPase activity|regulation of striated muscle contraction|regulation of the force of heart contraction|ventricular cardiac muscle tissue morphogenesis	A band|cytosol|I band|muscle myosin complex	actin monomer binding|calcium ion binding|myosin II heavy chain binding|structural constituent of muscle				0				BRCA - Breast invasive adenocarcinoma(193;0.00116)|KIRC - Kidney renal clear cell carcinoma(197;0.00557)|Kidney(197;0.0063)		CTCCTTAGGGCGCTCAGGCTC	0.607													7	104					0	0	0.001984	0	0	
PTPN23	25930	broad.mit.edu	37	3	47453616	47453616	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:47453616G>A	uc003crf.1	+	22	4202	c.4106G>A	c.(4105-4107)CGC>CAC	p.R1369H	PTPN23_uc011bax.1_RNA|PTPN23_uc011bay.1_Missense_Mutation_p.R1239H|uc003cri.2_5'Flank	NM_015466	NP_056281	Q9H3S7	PTN23_HUMAN	protein tyrosine phosphatase, non-receptor type	1369	Tyrosine-protein phosphatase.				cilium morphogenesis	cilium|cytoplasmic membrane-bounded vesicle|microtubule basal body	protein tyrosine phosphatase activity			breast(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000271)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		AACTTGCTGCGCTTCATCCAG	0.632													6	31					0	0	0.000978	0	0	
CSPG5	10675	broad.mit.edu	37	3	47604238	47604238	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:47604238G>T	uc003crp.3	-	5	1729	c.1553C>A	c.(1552-1554)GCT>GAT	p.A518D	CSPG5_uc003crm.2_RNA|CSPG5_uc003crn.2_Missense_Mutation_p.A353D|CSPG5_uc003cro.3_Missense_Mutation_p.A491D|CSPG5_uc011bbb.1_Missense_Mutation_p.A380D	NM_006574	NP_006565	O95196	CSPG5_HUMAN	chondroitin sulfate proteoglycan 5 (neuroglycan	518	Cytoplasmic (Potential).				cell differentiation|intracellular transport|nervous system development|regulation of growth	endoplasmic reticulum membrane|Golgi-associated vesicle membrane|integral to plasma membrane|membrane fraction	growth factor activity			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000266)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)		TTTGTGGGGAGCACTAGGATC	0.473													24	74					5.45024e-15	5.93198e-15	0.003330	1	0	
SMARCC1	6599	broad.mit.edu	37	3	47712178	47712178	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:47712178C>T	uc003crq.2	-	19	1987	c.1869G>A	c.(1867-1869)TGG>TGA	p.W623*	SMARCC1_uc011bbc.1_RNA|SMARCC1_uc011bbd.1_Nonsense_Mutation_p.W514*	NM_003074	NP_003065	Q92922	SMRC1_HUMAN	SWI/SNF-related matrix-associated	623	SANT.				chromatin remodeling|nervous system development|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex|WINAC complex	DNA binding|protein N-terminus binding|transcription coactivator activity			skin(2)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(193;7.47e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00862)|Kidney(197;0.01)		CCTGTTCAGTCCATTCTCTTC	0.353													18	60					0	0	0.002299	0	0	
DHX30	22907	broad.mit.edu	37	3	47888355	47888355	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:47888355G>A	uc003cru.2	+	11	2219	c.1793G>A	c.(1792-1794)CGC>CAC	p.R598H	DHX30_uc003crt.2_Missense_Mutation_p.R559H|MIR1226_hsa-mir-1226|MI0006313_5'Flank	NM_138615	NP_619520	Q7L2E3	DHX30_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 30	598	Helicase ATP-binding.					mitochondrial nucleoid	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			ovary(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;0.000696)|KIRC - Kidney renal clear cell carcinoma(197;0.00609)|Kidney(197;0.007)		GACAATGAGCGCTTCTCCCGA	0.597													4	8					0	0	0.000602	0	0	
SPINK8	646424	broad.mit.edu	37	3	48369810	48369810	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:48369810C>T	uc003csq.1	-	1	22	c.22G>A	c.(22-24)GCC>ACC	p.A8T		NM_001080525	NP_001073994	P0C7L1	ISK8_HUMAN	serine peptidase inhibitor, Kazal type 8	8						extracellular region	serine-type endopeptidase inhibitor activity				0				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00553)|Kidney(197;0.00625)		ACAAGGATGGCGTCTGAGCAG	0.418													11	36					0	0	0.001855	0	0	
FBXW12	285231	broad.mit.edu	37	3	48423521	48423521	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:48423521A>G	uc003csr.2	+	10	1427	c.1241A>G	c.(1240-1242)TAC>TGC	p.Y414C	FBXW12_uc010hjv.2_Missense_Mutation_p.Y395C|FBXW12_uc003css.2_Missense_Mutation_p.Y344C|FBXW12_uc010hjw.2_Missense_Mutation_p.Y313C	NM_207102	NP_996985	Q6X9E4	FBW12_HUMAN	F-box and WD repeat domain containing 12 isoform	414	WD 5.										0				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		CGCCATCCATACCTCAGGAGC	0.483													3	34					0	0	0.009096	0	0	
PLXNB1	5364	broad.mit.edu	37	3	48455097	48455097	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:48455097A>G	uc003csw.2	-	23	4787	c.4517T>C	c.(4516-4518)ATC>ACC	p.I1506T	PLXNB1_uc003cst.2_5'UTR|PLXNB1_uc003csu.2_Missense_Mutation_p.I1323T|PLXNB1_uc003csx.2_Missense_Mutation_p.I1506T|PLXNB1_uc010hjx.1_RNA	NM_002673	NP_002664	O43157	PLXB1_HUMAN	plexin B1 precursor	1506	Helical; (Potential).				axon guidance|cell migration|intracellular signal transduction|regulation of cell shape|regulation of cytoskeleton organization|regulation of small GTPase mediated signal transduction|semaphorin-plexin signaling pathway	extracellular region|integral to plasma membrane|intracellular|semaphorin receptor complex	GTPase activator activity|semaphorin receptor activity|semaphorin receptor binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		GAGGACAATGATGATGACACC	0.413													7	13					0	0	0.001984	0	0	
CELSR3	1951	broad.mit.edu	37	3	48678953	48678953	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:48678953C>A	uc003cul.2	-	33	9110	c.8829G>T	c.(8827-8829)GTG>GTT	p.V2943V	CELSR3_uc003cuf.1_Silent_p.V3041V|CELSR3_uc010hkf.2_Silent_p.V233V|CELSR3_uc010hkg.2_Silent_p.V926V	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	2943	Cytoplasmic (Potential).				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		CATTGCCATCCACATCTGTGG	0.602													7	13					0.000157383	0.0001649	0.003080	1	0	
QRICH1	54870	broad.mit.edu	37	3	49095173	49095173	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:49095173G>A	uc010hkq.2	-	4	756	c.460C>T	c.(460-462)CCG>TCG	p.P154S	QRICH1_uc003cvu.2_Missense_Mutation_p.P154S|QRICH1_uc003cvv.2_Missense_Mutation_p.P154S	NM_198880	NP_942581	Q2TAL8	QRIC1_HUMAN	glutamine-rich 1	154	Gln-rich.									ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.88e-05)|Kidney(197;0.00239)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)		TGCAGAGACGGGGTCTGAATG	0.617													6	58					0	0	0.001984	0	0	
QRICH1	54870	broad.mit.edu	37	3	49114337	49114337	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:49114337C>T	uc010hkq.2	-	3	410	c.114G>A	c.(112-114)GGG>GGA	p.G38G	QRICH1_uc003cvu.2_Silent_p.G38G|QRICH1_uc003cvv.2_Silent_p.G38G	NM_198880	NP_942581	Q2TAL8	QRIC1_HUMAN	glutamine-rich 1	38	CARD.									ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.88e-05)|Kidney(197;0.00239)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)		GGGCTTCTGGCCCCTTAGAGG	0.527													13	92					0	0	0.001368	0	0	
USP19	10869	broad.mit.edu	37	3	49148537	49148537	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:49148537G>A	uc003cwd.1	-	22	3243	c.3082C>T	c.(3082-3084)CGC>TGC	p.R1028C	USP19_uc003cwa.2_Missense_Mutation_p.R836C|USP19_uc003cvz.3_Missense_Mutation_p.R1131C|USP19_uc011bcg.1_Missense_Mutation_p.R1119C|USP19_uc003cwb.2_Intron|USP19_uc003cwc.1_Missense_Mutation_p.R786C|USP19_uc011bch.1_Missense_Mutation_p.R1129C	NM_006677	NP_006668	O94966	UBP19_HUMAN	ubiquitin thioesterase 19	1028	Cytoplasmic (Potential).				ER-associated protein catabolic process|positive regulation of cell cycle process|protein deubiquitination|regulation of protein stability|response to endoplasmic reticulum stress|skeletal muscle atrophy	endoplasmic reticulum membrane|integral to membrane	ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(4)|breast(2)|lung(1)	7				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		TCCTGCAAGCGCTCATTGTTC	0.617													18	36					0	0	0.001882	0	0	
CCDC71	64925	broad.mit.edu	37	3	49200838	49200838	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:49200838C>T	uc003cwg.3	-	2	942	c.804G>A	c.(802-804)CGG>CGA	p.R268R		NM_022903	NP_075054	Q8IV32	CCD71_HUMAN	coiled-coil domain containing 71	268										ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00217)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		CTTTCATTCGCCGGACACTGG	0.637													10	41					0	0	0.001855	0	0	
CCDC36	339834	broad.mit.edu	37	3	49292916	49292916	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:49292916G>T	uc003cwk.2	+	9	1013	c.626G>T	c.(625-627)AGA>ATA	p.R209I	CCDC36_uc011bck.1_Missense_Mutation_p.R209I	NM_178173	NP_835467	Q8IYA8	CCD36_HUMAN	coiled-coil domain containing 36	209										ovary(1)|kidney(1)	2				BRCA - Breast invasive adenocarcinoma(193;9.11e-05)|Kidney(197;0.00248)|KIRC - Kidney renal clear cell carcinoma(197;0.00262)		ATGAAGAAAAGATTTGAAGCT	0.388													26	55					2.80507e-11	3.02588e-11	0.002445	1	0	
USP4	7375	broad.mit.edu	37	3	49322015	49322015	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:49322015G>T	uc003cwq.2	-	18	2353	c.2274C>A	c.(2272-2274)GCC>GCA	p.A758A	USP4_uc003cwo.2_Silent_p.A470A|USP4_uc003cwp.2_Silent_p.A488A|USP4_uc003cwr.2_Silent_p.A711A	NM_003363	NP_003354	Q13107	UBP4_HUMAN	ubiquitin specific protease 4 isoform a	758					negative regulation of protein ubiquitination|protein deubiquitination|protein localization at cell surface|regulation of protein stability|ubiquitin-dependent protein catabolic process	lysosome|nucleus	adenosine receptor binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)|urinary_tract(1)|lung(1)	4		Ovarian(412;0.00308)|Myeloproliferative disorder(1037;0.0255)|Hepatocellular(537;0.121)		OV - Ovarian serous cystadenocarcinoma(275;4.74e-26)|Kidney(197;2.22e-07)|KIRC - Kidney renal clear cell carcinoma(197;5.14e-06)|BRCA - Breast invasive adenocarcinoma(193;9.46e-05)		GCTTCTCGTAGGCCTATGGGA	0.502													30	119					1.36161e-19	1.49098e-19	0.004289	1	0	
BSN	8927	broad.mit.edu	37	3	49694978	49694978	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:49694978C>T	uc003cxe.3	+	5	8103	c.7989C>T	c.(7987-7989)AGC>AGT	p.S2663S		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	2663					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		CCATGAGCAGCGTGGGCATCC	0.622													4	24					0	0	0.006214	0	0	
BSN	8927	broad.mit.edu	37	3	49699714	49699714	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:49699714C>T	uc003cxe.3	+	6	10550	c.10436C>T	c.(10435-10437)GCG>GTG	p.A3479V		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	3479					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		CTTCAAAAAGCGGGCCCCAAG	0.627													6	17					0	0	0.001168	0	0	
IP6K1	9807	broad.mit.edu	37	3	49785329	49785329	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:49785329T>C	uc003cxm.1	-	2	460	c.145A>G	c.(145-147)AAG>GAG	p.K49E	IP6K1_uc003cxn.1_Intron|IP6K1_uc011bcv.1_Intron|IP6K1_uc003cxo.2_Missense_Mutation_p.K49E	NM_153273	NP_695005	Q92551	IP6K1_HUMAN	inositol hexakisphosphate kinase 1 isoform 1	49					phosphatidylinositol phosphorylation	cytoplasm|nucleus	ATP binding|inositol hexakisphosphate 5-kinase activity|inositol trisphosphate 3-kinase activity				0						ATGAGGGGCTTGCACACAGTG	0.562													4	43					0	0	0.000602	0	0	
MST1R	4486	broad.mit.edu	37	3	49935976	49935976	+	Missense_Mutation	SNP	T	A	A	rs144558604	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:49935976T>A	uc003cxy.3	-	4	1958	c.1694A>T	c.(1693-1695)GAC>GTC	p.D565V	MST1R_uc011bdd.1_Missense_Mutation_p.D565V|MST1R_uc011bde.1_Missense_Mutation_p.D565V|MST1R_uc011bdf.1_Missense_Mutation_p.D459V|MST1R_uc011bdc.1_5'Flank	NM_002447	NP_002438	Q04912	RON_HUMAN	macrophage stimulating 1 receptor precursor	565	Extracellular (Potential).				cellular component movement|defense response|multicellular organismal development|positive regulation of cell proliferation|single fertilization|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|macrophage colony-stimulating factor receptor activity|protein binding			ovary(5)|lung(1)	6				BRCA - Breast invasive adenocarcinoma(193;4.65e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00553)|Kidney(197;0.00625)		TGGGCAGTGGTCCTGTTGCCA	0.602													15	38					0	0	0.004990	0	0	
RBM6	10180	broad.mit.edu	37	3	50005976	50005976	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:50005976C>T	uc003cyc.2	+	3	1251	c.1118C>T	c.(1117-1119)TCT>TTT	p.S373F	RBM6_uc011bdh.1_RNA|RBM6_uc010hlc.1_Intron|RBM6_uc003cyd.2_Intron|RBM6_uc003cye.2_Intron|RBM6_uc011bdi.1_Intron|RBM6_uc010hld.1_Intron|RBM6_uc010hle.1_Intron|RBM6_uc010hlf.1_Intron	NM_005777	NP_005768	P78332	RBM6_HUMAN	RNA binding motif protein 6	373					RNA processing	nucleus	DNA binding|nucleotide binding|RNA binding|zinc ion binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;6.81e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0084)|Kidney(197;0.00977)		TCACAGCTTTCTGGACGTGAA	0.473													5	79					0	0	0.000602	0	0	
GNAT1	2779	broad.mit.edu	37	3	50231062	50231062	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:50231062G>A	uc003cym.2	+	4	531	c.415G>A	c.(415-417)GCC>ACC	p.A139T	GNAT1_uc003cyl.2_Missense_Mutation_p.A139T	NM_144499	NP_653082	P11488	GNAT1_HUMAN	rod-type transducin alpha subunit	139					detection of chemical stimulus involved in sensory perception of bitter taste|G-protein signaling, coupled to cAMP nucleotide second messenger|negative regulation of cyclic-nucleotide phosphodiesterase activity|rhodopsin mediated phototransduction|sensory perception of umami taste	heterotrimeric G-protein complex|photoreceptor inner segment|photoreceptor outer segment membrane	acyl binding|G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GDP binding|GTP binding|GTPase activity|protein kinase binding|signal transducer activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)		TTTTGAGCGCGCCTCGGAGTA	0.483													8	16					0	0	0.006214	0	0	
SEMA3B	7869	broad.mit.edu	37	3	50314079	50314079	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:50314079G>A	uc003cyu.2	+	19	2434	c.2192G>A	c.(2191-2193)AGG>AAG	p.R731K	SEMA3B_uc003cyt.2_Missense_Mutation_p.R730K|SEMA3B_uc003cyv.2_Missense_Mutation_p.R618K|SEMA3B_uc003cyw.2_Missense_Mutation_p.R454K|SEMA3B_uc010hli.2_Missense_Mutation_p.R623K|SEMA3B_uc003cyx.2_Missense_Mutation_p.R617K|SEMA3B_uc003cyy.2_Missense_Mutation_p.R388K|SEMA3B_uc011bdo.1_Missense_Mutation_p.R388K|C3orf45_uc003cyz.2_5'Flank	NM_004636	NP_004627	Q13214	SEM3B_HUMAN	semaphorin 3B isoform 1 precursor	731	Arg-rich (basic).				axon guidance|cell-cell signaling	endoplasmic reticulum|extracellular region|membrane	receptor activity			lung(2)|central_nervous_system(2)|kidney(1)|skin(1)	6				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)		CGTAACCGGAGGACCCACGCC	0.721													3	7					0	0	0.009096	0	0	
MAPKAPK3	7867	broad.mit.edu	37	3	50679181	50679181	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:50679181G>A	uc003day.1	+	6	999	c.403G>A	c.(403-405)GAC>AAC	p.D135N	MAPKAPK3_uc003daz.1_Missense_Mutation_p.D135N|MAPKAPK3_uc003dba.1_Missense_Mutation_p.D135N|MAPKAPK3_uc010hlr.1_Missense_Mutation_p.D135N	NM_004635	NP_004626	Q16644	MAPK3_HUMAN	mitogen-activated protein kinase-activated	135	Protein kinase.				activation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase kinase activity|protein serine/threonine kinase activity			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.0188)|Kidney(197;0.0223)		GGAGCGTGGCGACCAGGCTTT	0.483													7	61					0	0	0.003080	0	0	
DOCK3	1795	broad.mit.edu	37	3	51418570	51418570	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:51418570C>T	uc011bds.1	+	53	5696	c.5673C>T	c.(5671-5673)AGC>AGT	p.S1891S		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	1891						cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)		GTGCCAGCAGCGGCGTGTCCT	0.622													11	34					0	0	0.002450	0	0	
VPRBP	9730	broad.mit.edu	37	3	51475546	51475546	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:51475546C>T	uc003dbe.1	-	8	1049	c.881G>A	c.(880-882)CGC>CAC	p.R294H	VPRBP_uc003dbg.1_Missense_Mutation_p.R294H	NM_014703	NP_055518	Q9Y4B6	VPRBP_HUMAN	HIV-1 Vpr binding protein	294					interspecies interaction between organisms	cytoplasm|nucleus	protein binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000272)|Kidney(197;0.000729)|KIRC - Kidney renal clear cell carcinoma(197;0.000875)		AACAAACATGCGATCTGGATC	0.433													22	78					0	0	0.001882	0	0	
RAD54L2	23132	broad.mit.edu	37	3	51673538	51673538	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:51673538C>T	uc011bdt.1	+	12	2089	c.1964C>T	c.(1963-1965)GCC>GTC	p.A655V	RAD54L2_uc003dbh.2_Missense_Mutation_p.A246V|RAD54L2_uc011bdu.1_Missense_Mutation_p.A349V|RAD54L2_uc003dbj.2_5'UTR	NM_015106	NP_055921	Q9Y4B4	ARIP4_HUMAN	RAD54-like 2	655						nucleus	ATP binding|DNA binding|helicase activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;0.000102)|Kidney(197;0.000758)|KIRC - Kidney renal clear cell carcinoma(197;0.000896)		GGGACCAGTGCCCGCTGTCCA	0.557													6	48					0	0	0.003080	0	0	
GRM2	2912	broad.mit.edu	37	3	51750038	51750038	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:51750038G>A	uc010hlv.2	+	4	2488	c.2249G>A	c.(2248-2250)CGC>CAC	p.R750H	GRM2_uc003dbo.3_Missense_Mutation_p.R132H|GRM2_uc010hlu.2_RNA	NM_000839	NP_000830	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2 isoform a	750	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane				lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acamprosate(DB00659)|Nicotine(DB00184)	TTCAAGACTCGCAAGTGCCCC	0.547													18	53					0	0	0.007413	0	0	
PCBP4	57060	broad.mit.edu	37	3	51993937	51993937	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:51993937G>A	uc003dcd.1	-	6	886	c.490C>T	c.(490-492)CGC>TGC	p.R164C	PCBP4_uc003dcb.1_Missense_Mutation_p.R130C|PCBP4_uc003dcc.1_Missense_Mutation_p.R185C|PCBP4_uc003dce.1_Missense_Mutation_p.R164C|PCBP4_uc003dcf.1_Missense_Mutation_p.R164C|PCBP4_uc003dcg.1_Missense_Mutation_p.R130C|PCBP4_uc003dch.1_Missense_Mutation_p.R164C|PCBP4_uc003dci.1_Intron|PCBP4_uc003dcj.1_Missense_Mutation_p.R164C|PCBP4_uc003dck.1_Intron|PCBP4_uc003dcl.1_Missense_Mutation_p.R164C	NM_033010	NP_127503	P57723	PCBP4_HUMAN	poly(rC) binding protein 4 isoform c	164						cytoplasm|ribonucleoprotein complex	DNA binding|RNA binding				0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000534)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		CAGATCTGGCGCACACACAGG	0.642													7	56					0	0	0.004482	0	0	
PCBP4	57060	broad.mit.edu	37	3	51995032	51995032	+	Silent	SNP	G	A	A	rs138501114		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:51995032G>A	uc003dcd.1	-	2	495	c.99C>T	c.(97-99)ATC>ATT	p.I33I	PCBP4_uc003dcb.1_5'UTR|PCBP4_uc003dcc.1_5'UTR|PCBP4_uc003dce.1_Silent_p.I33I|PCBP4_uc003dcf.1_Silent_p.I33I|PCBP4_uc003dcg.1_5'UTR|PCBP4_uc003dch.1_Silent_p.I33I|PCBP4_uc003dci.1_5'UTR|PCBP4_uc003dcj.1_Silent_p.I33I|PCBP4_uc003dck.1_Silent_p.I33I|PCBP4_uc003dcl.1_Silent_p.I33I	NM_033010	NP_127503	P57723	PCBP4_HUMAN	poly(rC) binding protein 4 isoform c	33	KH 1.					cytoplasm|ribonucleoprotein complex	DNA binding|RNA binding				0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000534)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		CTACCTTCCCGATGATGCTGC	0.542													11	109					0	0	0.000978	0	0	
ABHD14A	25864	broad.mit.edu	37	3	52014637	52014637	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:52014637C>T	uc003dco.2	+	4	736	c.626C>T	c.(625-627)GCT>GTT	p.A209V	ABHD14B_uc003dcn.2_Intron|ACY1_uc011bea.1_Intron|ACY1_uc011beb.1_5'Flank|ACY1_uc003dcp.2_5'Flank|ACY1_uc003dcq.2_5'Flank	NM_015407	NP_056222	Q9BUJ0	ABHEA_HUMAN	abhydrolase domain containing 14A	209						cytoplasm|integral to membrane	hydrolase activity				0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000541)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		CAATTCTGGGCTGTGAAGGTA	0.567													13	50					0	0	0.001855	0	0	
GLYCTK	132158	broad.mit.edu	37	3	52326603	52326603	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:52326603G>A	uc003ddo.2	+	5	1129	c.1033G>A	c.(1033-1035)GCC>ACC	p.A345T	GLYCTK_uc003ddq.2_3'UTR|GLYCTK_uc003ddm.2_Intron|GLYCTK_uc003ddn.2_Intron|GLYCTK_uc003ddp.1_Intron|GLYCTK_uc003ddr.2_Missense_Mutation_p.A9T	NM_145262	NP_660305	Q8IVS8	GLCTK_HUMAN	glycerate kinase isoform 1	345					protein phosphorylation	Golgi apparatus|mitochondrion	ATP binding|glycerate kinase activity|protein binding				0				BRCA - Breast invasive adenocarcinoma(193;3.56e-05)|Kidney(197;0.00171)|KIRC - Kidney renal clear cell carcinoma(197;0.00194)|OV - Ovarian serous cystadenocarcinoma(275;0.235)		AAAAAGTATGGCCCAGTTCTA	0.612													8	29					0	0	0.006214	0	0	
DNAH1	25981	broad.mit.edu	37	3	52392637	52392637	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:52392637T>A	uc011bef.1	+	25	4411	c.4150T>A	c.(4150-4152)TTG>ATG	p.L1384M		NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	1384	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		GGAGGTACAGTTGTGCTTCTC	0.597													3	12					0	0	0.009096	0	0	
STAB1	23166	broad.mit.edu	37	3	52556909	52556909	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:52556909G>A	uc003dej.2	+	62	6937	c.6863G>A	c.(6862-6864)CGC>CAC	p.R2288H	STAB1_uc003dek.1_Missense_Mutation_p.R303H|STAB1_uc003del.2_Missense_Mutation_p.R175H	NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	2288	Extracellular (Potential).|Link.				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|upper_aerodigestive_tract(2)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	9				BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		CTGGGTGCCCGCAAGAACCTC	0.617													4	48					0	0	0.009096	0	0	
ITIH3	3699	broad.mit.edu	37	3	52840399	52840399	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:52840399G>A	uc003dfv.2	+	18	2069	c.2033G>A	c.(2032-2034)CGC>CAC	p.R678H	ITIH3_uc011bek.1_Intron	NM_002217	NP_002208	Q06033	ITIH3_HUMAN	inter-alpha (globulin) inhibitor H3	678					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|liver(1)	3				BRCA - Breast invasive adenocarcinoma(193;7e-05)|Kidney(197;0.000656)|KIRC - Kidney renal clear cell carcinoma(197;0.000794)|OV - Ovarian serous cystadenocarcinoma(275;0.0496)		ACAGTGCTGCGCCTTATTCAG	0.612													12	29					0	0	0.001368	0	0	
ITIH4	3700	broad.mit.edu	37	3	52860646	52860646	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:52860646G>A	uc003dfz.2	-	5	577	c.541C>T	c.(541-543)CCC>TCC	p.P181S	ITIH4_uc011bel.1_5'Flank|ITIH4_uc003dfy.2_Missense_Mutation_p.P57S|ITIH4_uc011bem.1_Missense_Mutation_p.P181S|ITIH4_uc011ben.1_Missense_Mutation_p.P181S	NM_002218	NP_002209	Q14624	ITIH4_HUMAN	inter-alpha (globulin) inhibitor H4	181					acute-phase response|hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(193;7e-05)|Kidney(197;0.000656)|KIRC - Kidney renal clear cell carcinoma(197;0.000794)|OV - Ovarian serous cystadenocarcinoma(275;0.0496)		ATGCCCTGGGGCTCGAAGATG	0.597													4	51					0	0	0.009096	0	0	
SFMBT1	51460	broad.mit.edu	37	3	52966139	52966139	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:52966139A>T	uc003dgf.2	-	7	1208	c.639T>A	c.(637-639)GAT>GAA	p.D213E	SFMBT1_uc010hmr.2_Missense_Mutation_p.D160E|SFMBT1_uc003dgg.2_Missense_Mutation_p.D213E|SFMBT1_uc003dgh.2_Missense_Mutation_p.D213E	NM_001005159	NP_001005159	Q9UHJ3	SMBT1_HUMAN	Scm-like with four mbt domains 1	213	MBT 2.				regulation of transcription, DNA-dependent	nucleus				ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;9.91e-05)|Kidney(197;0.000644)|KIRC - Kidney renal clear cell carcinoma(197;0.000792)|OV - Ovarian serous cystadenocarcinoma(275;0.113)		GAAGAAATGGATCCAAGTAAT	0.408													7	63					0	0	0.001984	0	0	
PRKCD	5580	broad.mit.edu	37	3	53222784	53222784	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:53222784G>T	uc003dgl.2	+	16	1817	c.1464G>T	c.(1462-1464)AAG>AAT	p.K488N	PRKCD_uc003dgm.2_Missense_Mutation_p.K488N	NM_006254	NP_006245	Q05655	KPCD_HUMAN	protein kinase C, delta	488	Protein kinase.				activation of phospholipase C activity|cellular component disassembly involved in apoptosis|cellular senescence|interferon-gamma-mediated signaling pathway|intracellular signal transduction|mRNA metabolic process|negative regulation of insulin receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of peptidyl-tyrosine phosphorylation|negative regulation of protein binding|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of ceramide biosynthetic process|positive regulation of glucosylceramide catabolic process|positive regulation of protein dephosphorylation|positive regulation of sphingomyelin catabolic process|protein stabilization|regulation of receptor activity|termination of signal transduction	cytosol|endoplasmic reticulum|nucleoplasm	ATP binding|calcium-independent protein kinase C activity|enzyme activator activity|enzyme binding|insulin receptor substrate binding|metal ion binding|protein C-terminus binding			central_nervous_system(4)|lung(3)|stomach(1)|skin(1)	9		Ovarian(412;0.0728)		OV - Ovarian serous cystadenocarcinoma(275;3.58e-08)|BRCA - Breast invasive adenocarcinoma(193;0.000142)|Kidney(197;0.00153)|KIRC - Kidney renal clear cell carcinoma(197;0.00173)		GCCACATCAAGATTGCCGACT	0.562													16	48					8.00594e-06	8.4562e-06	0.007413	1	0	
CACNA1D	776	broad.mit.edu	37	3	53778828	53778828	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:53778828G>A	uc003dgv.3	+	23	3143	c.2980G>A	c.(2980-2982)GCC>ACC	p.A994T	CACNA1D_uc003dgu.3_Missense_Mutation_p.A1014T|CACNA1D_uc003dgy.3_Missense_Mutation_p.A994T|CACNA1D_uc003dgw.3_Missense_Mutation_p.A661T|CACNA1D_uc003dgx.1_Missense_Mutation_p.A142T	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	994	Helical; Name=S4 of repeat III; (Potential).|III.				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	TCCCCTCAGGGCCATCAACAG	0.547													10	37					0	0	0.008291	0	0	
IL17RB	55540	broad.mit.edu	37	3	53899038	53899038	+	Silent	SNP	C	T	T	rs3733078		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:53899038C>T	uc003dha.2	+	11	1251	c.1212C>T	c.(1210-1212)TGC>TGT	p.C404C		NM_018725	NP_061195	Q9NRM6	I17RB_HUMAN	interleukin 17B receptor precursor	404	SEFIR.|Cytoplasmic (Potential).				defense response|regulation of cell growth	extracellular region|integral to plasma membrane	cytokine receptor activity			ovary(2)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000158)|KIRC - Kidney renal clear cell carcinoma(284;0.00588)|Kidney(284;0.00673)|OV - Ovarian serous cystadenocarcinoma(275;0.118)		ACAGTGTGTGCGATGGTACCT	0.502													14	33					0	0	0.006122	0	0	
ACTR8	93973	broad.mit.edu	37	3	53905304	53905304	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:53905304C>T	uc003dhd.2	-	11	1581	c.1522G>A	c.(1522-1524)GCC>ACC	p.A508T	ACTR8_uc003dhb.2_Missense_Mutation_p.A213T|ACTR8_uc003dhc.2_Missense_Mutation_p.A397T	NM_022899	NP_075050	Q9H981	ARP8_HUMAN	actin-related protein 8	508					cell division|DNA recombination|DNA repair|mitosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Ino80 complex	protein binding			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000143)|KIRC - Kidney renal clear cell carcinoma(284;0.00544)|Kidney(284;0.00607)|OV - Ovarian serous cystadenocarcinoma(275;0.111)		AGGCCCAGGGCTTTTCCTTCA	0.532													7	95					0	0	0.003080	0	0	
CACNA2D3	55799	broad.mit.edu	37	3	54922046	54922046	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:54922046C>T	uc003dhf.2	+	24	2165	c.2117C>T	c.(2116-2118)GCG>GTG	p.A706V	CACNA2D3_uc011beu.1_RNA|CACNA2D3_uc003dhg.1_Missense_Mutation_p.A612V|CACNA2D3_uc003dhh.1_RNA|uc003dhk.1_Intron	NM_018398	NP_060868	Q8IZS8	CA2D3_HUMAN	calcium channel, voltage-dependent, alpha	706	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			large_intestine(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7				KIRC - Kidney renal clear cell carcinoma(284;0.00287)|Kidney(284;0.00327)		CCCATTGAAGCGTATTGGACC	0.502													5	70					0	0	0.001984	0	0	
LRTM1	57408	broad.mit.edu	37	3	54952504	54952504	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:54952504A>G	uc003dhl.2	-	3	1154	c.1020T>C	c.(1018-1020)TTT>TTC	p.F340F	CACNA2D3_uc003dhf.2_Intron|CACNA2D3_uc003dhg.1_Intron|CACNA2D3_uc003dhh.1_Intron	NM_020678	NP_065729	Q9HBL6	LRTM1_HUMAN	leucine-rich repeats and transmembrane domains 1	340	Cytoplasmic (Potential).					integral to membrane					0				KIRC - Kidney renal clear cell carcinoma(284;0.00975)|Kidney(284;0.0112)|OV - Ovarian serous cystadenocarcinoma(275;0.0502)		GTGAGCTGTCAAATCGCTCTT	0.502													52	189					0	0	0.003610	0	0	
CACNA2D3	55799	broad.mit.edu	37	3	55038847	55038847	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:55038847C>T	uc003dhf.2	+	32	2796	c.2748C>T	c.(2746-2748)GGC>GGT	p.G916G	CACNA2D3_uc003dhg.1_Silent_p.G822G|CACNA2D3_uc003dhh.1_RNA	NM_018398	NP_060868	Q8IZS8	CA2D3_HUMAN	calcium channel, voltage-dependent, alpha	916	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			large_intestine(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7				KIRC - Kidney renal clear cell carcinoma(284;0.00287)|Kidney(284;0.00327)		GCAGCGATGGCGCCCATGGCC	0.453													27	51					0	0	0.006320	0	0	
ERC2	26059	broad.mit.edu	37	3	55922476	55922476	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:55922476C>T	uc003dhr.1	-	14	2761	c.2505G>A	c.(2503-2505)GCG>GCA	p.A835A	ERC2_uc003dhq.1_RNA|ERC2_uc003dht.1_Silent_p.A314A	NM_015576	NP_056391	O15083	ERC2_HUMAN	cytomatrix protein p110	835	Potential.					cell junction|cytoplasm|cytoskeleton|growth cone|presynaptic membrane|synaptosome	protein binding			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(284;0.0667)|Kidney(284;0.0873)|OV - Ovarian serous cystadenocarcinoma(275;0.219)		TGGCCAAGTGCGCTTCTTTTT	0.537													8	159					0	0	0.006214	0	0	
C3orf63	23272	broad.mit.edu	37	3	56675649	56675649	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:56675649G>A	uc003did.3	-	15	2448	c.2347C>T	c.(2347-2349)CGC>TGC	p.R783C	C3orf63_uc003dic.3_Missense_Mutation_p.R387C|C3orf63_uc003die.3_Missense_Mutation_p.R783C	NM_015224	NP_056039	Q9UK61	CC063_HUMAN	retinoblastoma-associated protein 140 isoform b	783										ovary(3)|kidney(1)|central_nervous_system(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.0126)|Kidney(284;0.0147)		TCAGAATGGCGCGCATTTGCT	0.463													7	90					0	0	0.004482	0	0	
IL17RD	54756	broad.mit.edu	37	3	57136541	57136541	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:57136541C>T	uc003dil.2	-	10	1034	c.945G>A	c.(943-945)ACG>ACA	p.T315T	IL17RD_uc003dik.2_Silent_p.T291T|IL17RD_uc010hna.2_Silent_p.T171T|IL17RD_uc011bex.1_Silent_p.T171T	NM_017563	NP_060033	Q8NFM7	I17RD_HUMAN	interleukin 17 receptor D precursor	315	Helical; (Potential).					Golgi membrane|integral to membrane|plasma membrane	receptor activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.0173)|Kidney(284;0.0204)		CAGTGAAGAGCGTCGCGAATG	0.567													6	35					0	0	0.001168	0	0	
APPL1	26060	broad.mit.edu	37	3	57293966	57293966	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:57293966G>A	uc003dio.2	+	17	1724	c.1577G>A	c.(1576-1578)CGC>CAC	p.R526H	APPL1_uc010hnb.2_Missense_Mutation_p.R526H|APPL1_uc011bey.1_Missense_Mutation_p.R509H	NM_012096	NP_036228	Q9UKG1	DP13A_HUMAN	adaptor protein, phosphotyrosine interaction, PH	526	PID.				apoptosis|cell cycle|cell proliferation|insulin receptor signaling pathway|regulation of apoptosis|regulation of establishment of protein localization in plasma membrane|regulation of glucose import	cytosol|early endosome membrane|microsome|nucleus|vesicle membrane	protein kinase B binding			breast(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0124)|Kidney(284;0.0144)		GAAACTATGCGCCAAATCTTA	0.378													11	53					0	0	0.001368	0	0	
SLMAP	7871	broad.mit.edu	37	3	57898261	57898261	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:57898261A>G	uc003dje.1	+	18	2007	c.1802A>G	c.(1801-1803)GAC>GGC	p.D601G	SLMAP_uc003djd.1_Missense_Mutation_p.D584G|SLMAP_uc003djf.1_Missense_Mutation_p.D563G|SLMAP_uc003djg.1_Missense_Mutation_p.D195G|SLMAP_uc011bez.1_Missense_Mutation_p.D69G|SLMAP_uc011bfa.1_Missense_Mutation_p.D135G|SLMAP_uc003djh.2_Missense_Mutation_p.D94G|SLMAP_uc003dji.1_Missense_Mutation_p.D135G|SLMAP_uc011bfb.1_Missense_Mutation_p.D135G|SLMAP_uc011bfc.1_Missense_Mutation_p.D94G	NM_007159	NP_009090	Q14BN4	SLMAP_HUMAN	sarcolemma associated protein	601	Cytoplasmic (Potential).|Potential.				muscle contraction|protein folding	integral to plasma membrane|microtubule organizing center|prefoldin complex|sarcolemma|smooth endoplasmic reticulum	unfolded protein binding				0				BRCA - Breast invasive adenocarcinoma(55;0.000271)|KIRC - Kidney renal clear cell carcinoma(284;0.0602)|Kidney(284;0.0754)|OV - Ovarian serous cystadenocarcinoma(275;0.182)		CGGGACACTGACATTGCTTCT	0.453													4	87					0	0	0.001168	0	0	
FLNB	2317	broad.mit.edu	37	3	58129201	58129201	+	Silent	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:58129201A>T	uc003djj.2	+	32	5451	c.5286A>T	c.(5284-5286)GGA>GGT	p.G1762G	FLNB_uc010hne.2_Silent_p.G1793G|FLNB_uc003djk.2_Silent_p.G1751G|FLNB_uc010hnf.2_Silent_p.G1738G|FLNB_uc003djl.2_Silent_p.G1582G|FLNB_uc003djm.2_Silent_p.G1569G	NM_001457	NP_001448	O75369	FLNB_HUMAN	filamin B isoform 2	1762	Filamin 16.				actin cytoskeleton organization|cell differentiation|cytoskeletal anchoring at plasma membrane|signal transduction	cell cortex|integral to membrane|nucleus|sarcomere	actin binding			breast(8)|ovary(5)|lung(3)|skin(2)|central_nervous_system(1)	19				BRCA - Breast invasive adenocarcinoma(55;0.000335)|KIRC - Kidney renal clear cell carcinoma(284;0.0726)|Kidney(284;0.0898)		GCTCCATAGGAGAGGTCCACA	0.547													10	36					0	0	0.008291	0	0	
FEZF2	55079	broad.mit.edu	37	3	62355881	62355881	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:62355881G>A	uc003dlh.2	-	4	1464	c.1257C>T	c.(1255-1257)TGC>TGT	p.C419C	FEZF2_uc003dli.2_Silent_p.C419C	NM_018008	NP_060478	Q8TBJ5	FEZF2_HUMAN	FEZ family zinc finger 2	419	C2H2-type 6.				transcription, DNA-dependent	nucleus	zinc ion binding			lung(1)	1		Lung SC(41;0.0262)		BRCA - Breast invasive adenocarcinoma(55;0.000221)|KIRC - Kidney renal clear cell carcinoma(15;0.00834)|Kidney(15;0.00957)		CGCAAGTGGCGCACGTGAAAG	0.522													34	102					0	0	0.002522	0	0	
FEZF2	55079	broad.mit.edu	37	3	62355985	62355985	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:62355985C>A	uc003dlh.2	-	4	1360	c.1153G>T	c.(1153-1155)GGC>TGC	p.G385C	FEZF2_uc003dli.2_Missense_Mutation_p.G385C	NM_018008	NP_060478	Q8TBJ5	FEZF2_HUMAN	FEZ family zinc finger 2	385					transcription, DNA-dependent	nucleus	zinc ion binding			lung(1)	1		Lung SC(41;0.0262)		BRCA - Breast invasive adenocarcinoma(55;0.000221)|KIRC - Kidney renal clear cell carcinoma(15;0.00834)|Kidney(15;0.00957)		TGCTTCTCGCCGCTGTGGGTC	0.507													29	87					1.88708e-17	2.06205e-17	0.008361	1	0	
THOC7	80145	broad.mit.edu	37	3	63825403	63825403	+	Silent	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:63825403T>G	uc003dlt.3	-	2	197	c.66A>C	c.(64-66)GGA>GGC	p.G22G	C3orf49_uc003dls.3_Intron|THOC7_uc003dlu.3_Intron	NM_025075	NP_079351	Q6I9Y2	THOC7_HUMAN	Ngg1 interacting factor 3 like 1 binding protein	22					intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	cytoplasm|THO complex part of transcription export complex	protein binding|RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(55;0.000439)|Kidney(15;0.00194)|KIRC - Kidney renal clear cell carcinoma(15;0.00218)		TCCGATCATCTCCAGCACCAT	0.438													21	43					0	0	0.002299	0	0	
ATXN7	6314	broad.mit.edu	37	3	63965619	63965619	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:63965619G>A	uc003dlw.3	+	6	1081	c.528G>A	c.(526-528)CCG>CCA	p.P176P	ATXN7_uc003dlv.2_Silent_p.P176P|ATXN7_uc010hnv.2_Silent_p.P176P|ATXN7_uc010hnw.2_Silent_p.P31P|ATXN7_uc011bfn.1_Silent_p.P31P	NM_000333	NP_000324	O15265	ATX7_HUMAN	ataxin 7 isoform a	176	Ser-rich.				cell death|histone deubiquitination|nucleus organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nuclear matrix|nucleolus	protein binding|zinc ion binding				0		Prostate(884;0.0181)		BRCA - Breast invasive adenocarcinoma(55;0.000614)|KIRC - Kidney renal clear cell carcinoma(15;0.00294)|Kidney(15;0.00305)		CCAGCAAGCCGCCTTTGGCCG	0.443													22	73					0	0	0.002780	0	0	
ATXN7	6314	broad.mit.edu	37	3	63975975	63975975	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:63975975C>T	uc003dlw.3	+	10	2038	c.1485C>T	c.(1483-1485)GGC>GGT	p.G495G	ATXN7_uc003dlv.2_Silent_p.G495G|ATXN7_uc010hnv.2_Silent_p.G495G|ATXN7_uc011bfn.1_Silent_p.G350G	NM_000333	NP_000324	O15265	ATX7_HUMAN	ataxin 7 isoform a	495					cell death|histone deubiquitination|nucleus organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nuclear matrix|nucleolus	protein binding|zinc ion binding				0		Prostate(884;0.0181)		BRCA - Breast invasive adenocarcinoma(55;0.000614)|KIRC - Kidney renal clear cell carcinoma(15;0.00294)|Kidney(15;0.00305)		GTGAGGAGGGCGAAGGCGATG	0.552													10	27					0	0	0.000978	0	0	
PRICKLE2	166336	broad.mit.edu	37	3	64084813	64084813	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:64084813C>A	uc003dmf.2	-	8	3035	c.2449G>T	c.(2449-2451)GGC>TGC	p.G817C		NM_198859	NP_942559	Q7Z3G6	PRIC2_HUMAN	prickle-like 2	817						cytoplasm|nuclear membrane	zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(201;0.136)		BRCA - Breast invasive adenocarcinoma(55;0.000971)|KIRC - Kidney renal clear cell carcinoma(15;0.00443)|Kidney(15;0.00497)		TTGGGGAGGCCGTAGGAGCTG	0.502													15	58					6.72482e-11	7.24671e-11	0.003163	1	0	
PRICKLE2	166336	broad.mit.edu	37	3	64084864	64084864	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:64084864G>A	uc003dmf.2	-	8	2984	c.2398C>T	c.(2398-2400)CGC>TGC	p.R800C		NM_198859	NP_942559	Q7Z3G6	PRIC2_HUMAN	prickle-like 2	800						cytoplasm|nuclear membrane	zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(201;0.136)		BRCA - Breast invasive adenocarcinoma(55;0.000971)|KIRC - Kidney renal clear cell carcinoma(15;0.00443)|Kidney(15;0.00497)		TATCGCAGGCGCGCTGGCTGG	0.557													5	43					0	0	0.000602	0	0	
ADAMTS9	56999	broad.mit.edu	37	3	64641547	64641547	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:64641547G>A	uc003dmg.2	-	5	1006	c.974C>T	c.(973-975)GCC>GTC	p.A325V	ADAMTS9_uc011bfo.1_Intron|ADAMTS9_uc003dmh.1_Missense_Mutation_p.A154V|ADAMTS9_uc003dmk.1_Missense_Mutation_p.A325V	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	325	Peptidase M12B.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		ATAGATAGAGGCTACCTGCAA	0.318													13	32					0	0	0.003163	0	0	
MAGI1	9223	broad.mit.edu	37	3	65415516	65415516	+	Missense_Mutation	SNP	C	T	T	rs151058544	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:65415516C>T	uc003dmn.2	-	12	2372	c.1846G>A	c.(1846-1848)GTG>ATG	p.V616M	MAGI1_uc003dmm.2_Missense_Mutation_p.V616M|MAGI1_uc003dmo.2_Missense_Mutation_p.V616M|MAGI1_uc003dmp.2_Missense_Mutation_p.V616M|MAGI1_uc010hny.2_Missense_Mutation_p.V501M	NM_001033057	NP_001028229	Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ	616					cell adhesion|cell surface receptor linked signaling pathway|protein complex assembly	tight junction	ATP binding|protein C-terminus binding			lung(2)|skin(1)|breast(1)|kidney(1)|pancreas(1)	6		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)		TTTGAAGCCACGTCCGCTGGG	0.468													7	44					0	0	0.008291	0	0	
PDZRN3	23024	broad.mit.edu	37	3	73453360	73453360	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:73453360C>T	uc003dpl.1	-	4	1201	c.1105G>A	c.(1105-1107)GCC>ACC	p.A369T	PDZRN3_uc011bgh.1_Missense_Mutation_p.A26T|PDZRN3_uc010hoe.1_Missense_Mutation_p.A67T|PDZRN3_uc011bgf.1_Missense_Mutation_p.A86T|PDZRN3_uc011bgg.1_Missense_Mutation_p.A89T	NM_015009	NP_055824	Q9UPQ7	PZRN3_HUMAN	PDZ domain containing ring finger 3	369							ubiquitin-protein ligase activity|zinc ion binding			pancreas(2)|ovary(2)|skin(2)|large_intestine(1)	7		Prostate(10;0.114)|Lung NSC(201;0.187)|Lung SC(41;0.236)		BRCA - Breast invasive adenocarcinoma(55;0.00041)|Epithelial(33;0.0023)|LUSC - Lung squamous cell carcinoma(21;0.0048)|Lung(16;0.0105)|KIRC - Kidney renal clear cell carcinoma(39;0.111)|Kidney(39;0.134)		TTAGTGAGGGCCATGATATGT	0.498													8	67					0	0	0.006214	0	0	
CNTN3	5067	broad.mit.edu	37	3	74334502	74334502	+	Silent	SNP	G	A	A	rs142860919		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:74334502G>A	uc003dpm.1	-	19	2738	c.2658C>T	c.(2656-2658)GGC>GGT	p.G886G		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	886	Fibronectin type-III 3.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		AAGGCCCAGCGCCGGCACTGT	0.468													28	94					0	0	0.009535	0	0	
ROBO2	6092	broad.mit.edu	37	3	77666778	77666778	+	Silent	SNP	C	T	T	rs143561771	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:77666778C>T	uc003dpy.3	+	22	4051	c.3408C>T	c.(3406-3408)GGC>GGT	p.G1136G	ROBO2_uc003dpz.2_Silent_p.G1140G|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Silent_p.G1140G|ROBO2_uc003dqa.2_Silent_p.G263G	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	1136	Cytoplasmic (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		CTGTTCGAGGCGTGGCTTCTT	0.532													16	56					0	0	0.003330	0	0	
ROBO2	6092	broad.mit.edu	37	3	77693990	77693990	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:77693990C>T	uc003dpy.3	+	25	4713	c.4070C>T	c.(4069-4071)GCC>GTC	p.A1357V	ROBO2_uc003dpz.2_Missense_Mutation_p.A1422V|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Missense_Mutation_p.A1361V	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	1357	Cytoplasmic (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		CAGCGCAATGCCAGCGACCTT	0.488													18	50					0	0	0.010504	0	0	
CGGBP1	8545	broad.mit.edu	37	3	88104713	88104713	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:88104713G>A	uc003dqs.2	-	4	926	c.414C>T	c.(412-414)GGC>GGT	p.G138G	CGGBP1_uc003dqt.2_Silent_p.G138G|CGGBP1_uc003dqu.2_Silent_p.G138G	NM_001008390	NP_001008391	Q9UFW8	CGBP1_HUMAN	CGG triplet repeat binding protein 1	138					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	double-stranded DNA binding				0		Lung NSC(201;0.0283)		LUSC - Lung squamous cell carcinoma(29;0.00359)|Lung(72;0.00677)		TAGGTATGGAGCCTCCATTCT	0.478													18	69					0	0	0.004990	0	0	
EPHA3	2042	broad.mit.edu	37	3	89259600	89259600	+	Silent	SNP	C	T	T	rs150099876	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:89259600C>T	uc003dqy.2	+	3	969	c.744C>T	c.(742-744)GGC>GGT	p.G248G	EPHA3_uc003dqx.1_Silent_p.G248G|EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	248	Extracellular (Potential).|Cys-rich.					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		GTACAGAAGGCGAATGGCTTG	0.478										TSP Lung(6;0.00050)			62	170					0	0	0.003610	0	0	
NSUN3	63899	broad.mit.edu	37	3	93803031	93803031	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:93803031A>G	uc003drl.1	+	3	319	c.203A>G	c.(202-204)GAT>GGT	p.D68G		NM_022072	NP_071355	Q9H649	NSUN3_HUMAN	NOL1/NOP2/Sun domain family, member 3	68							methyltransferase activity			skin(1)	1						CTGGAAAAGGATTTACATTTG	0.413													28	61					0	0	0.002836	0	0	
EPHA6	285220	broad.mit.edu	37	3	96706649	96706649	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:96706649C>T	uc010how.1	+	3	969	c.926C>T	c.(925-927)GCC>GTC	p.A309V	EPHA6_uc003drp.1_Missense_Mutation_p.A309V	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	214	Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						CGTAACTTGGCCATGTTTCCT	0.463													11	187					0	0	0.008291	0	0	
MINA	84864	broad.mit.edu	37	3	97666220	97666220	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:97666220C>T	uc003drz.1	-	8	1640	c.1134G>A	c.(1132-1134)CCG>CCA	p.P378P	MINA_uc003dry.1_Silent_p.P49P|MINA_uc003dsa.1_Silent_p.P377P|MINA_uc003dsb.1_Silent_p.P378P|MINA_uc003dsc.1_Silent_p.P377P|MINA_uc010hpa.1_RNA	NM_001042533	NP_001035998	Q8IUF8	MINA_HUMAN	MYC induced nuclear antigen isoform a	378					ribosome biogenesis	cytoplasm|nucleolus				ovary(1)	1						GATCTTGATCCGGCAGTACTG	0.463													7	98					0	0	0.003080	0	0	
MINA	84864	broad.mit.edu	37	3	97686148	97686148	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:97686148C>T	uc003drz.1	-	2	796	c.290G>A	c.(289-291)GGA>GAA	p.G97E	MINA_uc003dsa.1_Missense_Mutation_p.G97E|MINA_uc003dsb.1_Missense_Mutation_p.G97E|MINA_uc003dsc.1_Missense_Mutation_p.G97E|MINA_uc010hpa.1_RNA|MINA_uc010hpb.1_Intron	NM_001042533	NP_001035998	Q8IUF8	MINA_HUMAN	MYC induced nuclear antigen isoform a	97					ribosome biogenesis	cytoplasm|nucleolus				ovary(1)	1						CACATCTCTTCCATAGTACAT	0.453													79	204					0	0	0.003610	0	0	
NIT2	56954	broad.mit.edu	37	3	100058029	100058029	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:100058029G>A	uc003dtv.2	+	2	180	c.106G>A	c.(106-108)GCC>ACC	p.A36T	NIT2_uc011bha.1_Missense_Mutation_p.A36T	NM_020202	NP_064587	Q9NQR4	NIT2_HUMAN	nitrilase family, member 2	36	CN hydrolase.				nitrogen compound metabolic process		omega-amidase activity			ovary(1)	1						AACGCAAGGAGCCAAAATAGT	0.507													6	114					0	0	0.001168	0	0	
FAM55C	91775	broad.mit.edu	37	3	101520245	101520245	+	Missense_Mutation	SNP	G	A	A	rs143859535		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:101520245G>A	uc003dvn.2	+	5	897	c.260G>A	c.(259-261)CGG>CAG	p.R87Q	FAM55C_uc010hpn.2_Missense_Mutation_p.R87Q	NM_145037	NP_659474	Q969Y0	FA55C_HUMAN	hypothetical protein LOC91775 precursor	87						extracellular region				ovary(1)|pancreas(1)|skin(1)	3						GCCTTGCACCGGCAGGTTCCT	0.552													21	46					0	0	0.002299	0	0	
ALCAM	214	broad.mit.edu	37	3	105243139	105243139	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:105243139C>T	uc003dvx.2	+	3	721	c.181C>T	c.(181-183)CCC>TCC	p.P61S	ALCAM_uc003dvv.2_Missense_Mutation_p.P61S|ALCAM_uc003dvw.1_Missense_Mutation_p.P61S|ALCAM_uc003dvy.2_Missense_Mutation_p.P61S|ALCAM_uc011bhh.1_Missense_Mutation_p.P10S	NM_001627	NP_001618	Q13740	CD166_HUMAN	activated leukocyte cell adhesion molecule	61	Extracellular (Potential).|Ig-like V-type 1.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(2)|breast(1)	3						ttaGGAAAAGCCCGATGGCTC	0.348													10	31					0	0	0.008291	0	0	
ALCAM	214	broad.mit.edu	37	3	105252485	105252485	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:105252485C>T	uc003dvx.2	+	5	1038	c.498C>T	c.(496-498)GGC>GGT	p.G166G	ALCAM_uc003dvw.1_Silent_p.G166G|ALCAM_uc003dvy.2_Silent_p.G166G|ALCAM_uc011bhh.1_Silent_p.G115G|ALCAM_uc010hpp.2_5'UTR	NM_001627	NP_001618	Q13740	CD166_HUMAN	activated leukocyte cell adhesion molecule	166	Extracellular (Potential).|Ig-like V-type 2.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(2)|breast(1)	3						ATCCAGATGGCAATATCACAT	0.453													7	102					0	0	0.004482	0	0	
CBLB	868	broad.mit.edu	37	3	105400357	105400357	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:105400357C>T	uc003dwc.2	-	16	2716	c.2394G>A	c.(2392-2394)ACG>ACA	p.T798T	CBLB_uc003dwa.2_Intron|CBLB_uc011bhi.1_Intron|CBLB_uc003dwd.1_Silent_p.T798T|CBLB_uc003dwe.1_3'UTR	NM_170662	NP_733762	Q13191	CBLB_HUMAN	Cas-Br-M (murine) ecotropic retroviral	798	Pro-rich.				cell surface receptor linked signaling pathway|NLS-bearing substrate import into nucleus	cytoplasm|nucleus	calcium ion binding|ligase activity|signal transducer activity|zinc ion binding			lung(4)|ovary(3)|breast(1)|skin(1)	9						AATCAGAGGGCGTCCTGTTGA	0.438			Mis S		AML								7	66					0	0	0.001984	0	0	
CBLB	868	broad.mit.edu	37	3	105404299	105404299	+	Missense_Mutation	SNP	G	T	T	rs151321164	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:105404299G>T	uc003dwc.2	-	14	2388	c.2066C>A	c.(2065-2067)CCG>CAG	p.P689Q	CBLB_uc011bhi.1_Missense_Mutation_p.P711Q|CBLB_uc003dwd.1_Missense_Mutation_p.P689Q|CBLB_uc003dwe.1_Missense_Mutation_p.P689Q	NM_170662	NP_733762	Q13191	CBLB_HUMAN	Cas-Br-M (murine) ecotropic retroviral	689	Pro-rich.				cell surface receptor linked signaling pathway|NLS-bearing substrate import into nucleus	cytoplasm|nucleus	calcium ion binding|ligase activity|signal transducer activity|zinc ion binding			lung(4)|ovary(3)|breast(1)|skin(1)	9						ATTTGCTAACGGACCAGTACA	0.388			Mis S		AML								6	43					0.00116845	0.00121571	0.001168	1	0	
HHLA2	11148	broad.mit.edu	37	3	108076864	108076864	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:108076864C>T	uc003dwy.3	+	6	1026	c.859C>T	c.(859-861)CGA>TGA	p.R287*	HHLA2_uc011bhl.1_Nonsense_Mutation_p.R223*|HHLA2_uc010hpu.2_Nonsense_Mutation_p.R287*|HHLA2_uc003dwz.2_Nonsense_Mutation_p.R287*	NM_007072	NP_009003	Q9UM44	HHLA2_HUMAN	HERV-H LTR-associating 2 precursor	287	Ig-like V-type 2.					integral to membrane				ovary(1)	1						CAATGAATCCCGATTCTCATG	0.378													39	151					0	0	0.008740	0	0	
KIAA1524	57650	broad.mit.edu	37	3	108276166	108276166	+	Silent	SNP	C	T	T	rs148609942		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:108276166C>T	uc003dxb.3	-	17	2378	c.2109G>A	c.(2107-2109)GCG>GCA	p.A703A		NM_020890	NP_065941	Q8TCG1	CIP2A_HUMAN	p90 autoantigen	703	Potential.					cytoplasm|integral to membrane	protein binding			ovary(2)|central_nervous_system(1)	3						TATCACTCTGCGCTCTTTCTG	0.408													7	62					0	0	0.001984	0	0	
DPPA2	151871	broad.mit.edu	37	3	109023460	109023460	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:109023460A>G	uc003dxo.2	-	7	963	c.716T>C	c.(715-717)GTA>GCA	p.V239A		NM_138815	NP_620170	Q7Z7J5	DPPA2_HUMAN	developmental pluripotency associated 2	239						nucleus	nucleic acid binding			ovary(2)|upper_aerodigestive_tract(1)	3						CTGCAGGCGTACCCAACCCTT	0.512													25	62					0	0	0.004656	0	0	
PHLDB2	90102	broad.mit.edu	37	3	111632332	111632332	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:111632332G>A	uc010hqa.2	+	3	1913	c.1502G>A	c.(1501-1503)AGC>AAC	p.S501N	PHLDB2_uc003dyc.2_Missense_Mutation_p.S528N|PHLDB2_uc003dyd.2_Missense_Mutation_p.S501N|PHLDB2_uc003dyg.2_Missense_Mutation_p.S501N|PHLDB2_uc003dyh.2_Missense_Mutation_p.S501N|PHLDB2_uc003dyi.2_Missense_Mutation_p.S87N|PHLDB2_uc003dyf.3_Missense_Mutation_p.S501N	NM_001134438	NP_001127910	Q86SQ0	PHLB2_HUMAN	pleckstrin homology-like domain, family B,	501						cytoplasm|intermediate filament cytoskeleton|plasma membrane				ovary(4)|skin(2)	6						GCCCTCATGAGCCCTGACACA	0.532													25	92					0	0	0.004656	0	0	
TMPRSS7	344805	broad.mit.edu	37	3	111799801	111799801	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:111799801A>G	uc010hqb.2	+	16	2194	c.2024A>G	c.(2023-2025)GAT>GGT	p.D675G	TMPRSS7_uc011bhr.1_Missense_Mutation_p.D530G	NM_001042575	NP_001036040	Q7RTY8	TMPS7_HUMAN	transmembrane protease, serine 7	801	Extracellular (Potential).|Peptidase S1.				proteolysis	integral to membrane|plasma membrane	serine-type endopeptidase activity			ovary(1)|kidney(1)	2						AGAAAAAGTGATGGAAAATGG	0.413													6	114					0	0	0.001168	0	0	
C3orf52	79669	broad.mit.edu	37	3	111828413	111828413	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:111828413G>A	uc003dyq.3	+	4	493	c.420G>A	c.(418-420)TCG>TCA	p.S140S	C3orf52_uc011bhs.1_Intron|C3orf52_uc011bht.1_Intron|C3orf52_uc003dyr.1_5'Flank	NM_024616	NP_078892	Q5BVD1	TTMP_HUMAN	TPA-induced transmembrane protein	140						endoplasmic reticulum membrane|integral to membrane					0						ACAGTACATCGCCCTCTCTGG	0.408													11	20					0	0	0.003163	0	0	
CCDC80	151887	broad.mit.edu	37	3	112337891	112337891	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:112337891C>A	uc003dzf.2	-	4	2314	c.2096G>T	c.(2095-2097)AGC>ATC	p.S699I	CCDC80_uc011bhv.1_Missense_Mutation_p.S699I|CCDC80_uc003dzg.2_Missense_Mutation_p.S699I|CCDC80_uc003dzh.1_Missense_Mutation_p.S699I	NM_199512	NP_955806	Q76M96	CCD80_HUMAN	steroid-sensitive protein 1 precursor	699										ovary(2)	2						CCTCAGCTCGCTGATGAGACG	0.423													4	55					0.00024832	0.000259867	0.009096	1	0	
BOC	91653	broad.mit.edu	37	3	113005615	113005615	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:113005615C>T	uc003dzx.2	+	20	3872	c.3251C>T	c.(3250-3252)CCC>CTC	p.P1084L	BOC_uc003dzy.2_Missense_Mutation_p.P1084L|BOC_uc003dzz.2_Missense_Mutation_p.P1085L|BOC_uc003eab.2_Missense_Mutation_p.P785L|BOC_uc003eac.2_Intron	NM_033254	NP_150279	Q9BWV1	BOC_HUMAN	brother of CDO precursor	1084	Cytoplasmic (Potential).				cell adhesion|muscle cell differentiation|positive regulation of myoblast differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|pancreas(1)	6			Epithelial(53;0.227)			CCCCAGCACCCCGTAGGGGCC	0.597													13	121					0	0	0.001855	0	0	
WDR52	55779	broad.mit.edu	37	3	113146042	113146042	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:113146042C>T	uc003eae.1	-	3	291	c.245G>A	c.(244-246)AGC>AAC	p.S82N		NM_018338	NP_060808	Q96MT7	WDR52_HUMAN	WD repeat domain 52 isoform 2	82										central_nervous_system(1)	1						ACCTGTAGTGCTTTGCAAATC	0.353													32	79					0	0	0.003271	0	0	
KIAA2018	205717	broad.mit.edu	37	3	113377816	113377816	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:113377816C>T	uc003eam.2	-	7	3124	c.2713G>A	c.(2713-2715)GCC>ACC	p.A905T	KIAA2018_uc003eal.2_Missense_Mutation_p.A849T	NM_001009899	NP_001009899	Q68DE3	K2018_HUMAN	hypothetical protein LOC205717	905					regulation of transcription, DNA-dependent	membrane|nucleus	calcium ion binding|DNA binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(2)|ovary(1)	3						TTTGCTGCGGCCATTGCAAAA	0.423													9	144					0	0	0.004482	0	0	
ATP6V1A	523	broad.mit.edu	37	3	113503074	113503074	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:113503074G>A	uc003eao.2	+	4	281	c.215G>A	c.(214-216)GGT>GAT	p.G72D	ATP6V1A_uc011bik.1_Missense_Mutation_p.G39D	NM_001690	NP_001681	P38606	VATA_HUMAN	ATPase, H+ transporting, lysosomal V1 subunit A	72					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|integral to plasma membrane|proton-transporting V-type ATPase, V1 domain	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism			ovary(2)|skin(1)	3						TTTTTAGCTGGTGTGTCTGTT	0.423													11	47					0	0	0.004007	0	0	
ZDHHC23	254887	broad.mit.edu	37	3	113673204	113673204	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:113673204G>A	uc003eau.2	+	3	1118	c.819G>A	c.(817-819)TGG>TGA	p.W273*	ZDHHC23_uc003eav.2_Nonsense_Mutation_p.W267*	NM_173570	NP_775841	Q8IYP9	ZDH23_HUMAN	zinc finger, DHHC domain containing 23	273	DHHC-type.					integral to membrane	acyltransferase activity|zinc ion binding			ovary(2)	2						CCCGGGCATGGCACTGCCGGA	0.522													4	19					0	0	0.000602	0	0	
DRD3	1814	broad.mit.edu	37	3	113850099	113850099	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:113850099G>A	uc003ebd.2	-	7	1295	c.872C>T	c.(871-873)GCG>GTG	p.A291V	DRD3_uc010hqn.1_Missense_Mutation_p.A291V|DRD3_uc003ebb.1_Intron|DRD3_uc003ebc.1_Missense_Mutation_p.A291V	NM_000796	NP_000787	P35462	DRD3_HUMAN	dopamine receptor D3 isoform a	291	Cytoplasmic.				activation of adenylate cyclase activity by dopamine receptor signaling pathway|arachidonic acid secretion|behavioral response to cocaine|cellular calcium ion homeostasis|circadian regulation of gene expression|G-protein coupled receptor internalization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|locomotory behavior|musculoskeletal movement, spinal reflex action|negative regulation of blood pressure|negative regulation of oligodendrocyte differentiation|negative regulation of protein kinase B signaling cascade|negative regulation of protein secretion|positive regulation of dopamine receptor signaling pathway|positive regulation of mitosis|prepulse inhibition|regulation of dopamine secretion|response to drug|response to histamine|response to morphine|social behavior|visual learning	integral to plasma membrane	dopamine D3 receptor activity|drug binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4					Apomorphine(DB00714)|Chlorprothixene(DB01239)|Cocaine(DB00907)|Methotrimeprazine(DB01403)|Olanzapine(DB00334)|Pramipexole(DB00413)|Ropinirole(DB00268)|Ziprasidone(DB00246)	GAGCTTGGGCGCTATGGTGGG	0.542													32	125					0	0	0.006230	0	0	
ZNF80	7634	broad.mit.edu	37	3	113955754	113955754	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:113955754G>A	uc010hqo.2	-	1	672	c.168C>T	c.(166-168)AGC>AGT	p.S56S	ZNF80_uc003ebf.2_RNA	NM_007136	NP_009067	P51504	ZNF80_HUMAN	zinc finger protein 80	56	C2H2-type 1.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Lung NSC(201;0.0233)|all_neural(597;0.0837)				TGTTAAACACGCTCCCACATT	0.478													4	46					0	0	0.009096	0	0	
B4GALT4	8702	broad.mit.edu	37	3	118937520	118937520	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:118937520G>A	uc003ecg.2	-	6	1415	c.774C>T	c.(772-774)GGC>GGT	p.G258G	B4GALT4_uc003ece.1_Silent_p.G258G|B4GALT4_uc003ecf.2_Intron|B4GALT4_uc003ech.2_Silent_p.G258G|B4GALT4_uc003eci.2_Silent_p.G258G|B4GALT4_uc011biy.1_Intron	NM_212543	NP_997708	O60513	B4GT4_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	258	Lumenal (Potential).				membrane lipid metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	metal ion binding|N-acetyllactosamine synthase activity				0				GBM - Glioblastoma multiforme(114;0.222)	N-Acetyl-D-glucosamine(DB00141)	CATCGTCTTCGCCTCCCCATC	0.488													7	98					0	0	0.004482	0	0	
C3orf1	51300	broad.mit.edu	37	3	119217590	119217590	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:119217590C>T	uc003ecn.2	+	1	223	c.10C>T	c.(10-12)CCG>TCG	p.P4S	C3orf1_uc003eco.2_RNA|C3orf1_uc003ecp.2_5'Flank	NM_016589	NP_057673	Q9NPL8	TIDC1_HUMAN	hypothetical protein LOC51300	4						integral to membrane|mitochondrial inner membrane	protein transporter activity				0				GBM - Glioblastoma multiforme(114;0.186)		CATGGAGGTGCCGCCACCGGC	0.592													5	70					0	0	0.000602	0	0	
POPDC2	64091	broad.mit.edu	37	3	119379244	119379244	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:119379244G>A	uc003ecx.1	-	1	161	c.27C>T	c.(25-27)GGC>GGT	p.G9G	POPDC2_uc010hqw.1_Silent_p.G9G|POPDC2_uc003ecy.1_Intron	NM_022135	NP_071418	Q9HBU9	POPD2_HUMAN	popeye protein 2	9						integral to membrane				central_nervous_system(1)	1				GBM - Glioblastoma multiforme(114;0.242)		AGAGAAGCTGGCCCACTCTGC	0.527													4	33					0	0	0.000602	0	0	
C3orf15	89876	broad.mit.edu	37	3	119434422	119434422	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:119434422A>G	uc003ede.3	+	6	591	c.514A>G	c.(514-516)ACT>GCT	p.T172A	C3orf15_uc003edc.2_Missense_Mutation_p.T172A|C3orf15_uc010hqy.1_Missense_Mutation_p.T172A|C3orf15_uc010hqz.2_Missense_Mutation_p.T110A|C3orf15_uc011bjd.1_Missense_Mutation_p.T46A|C3orf15_uc011bje.1_Missense_Mutation_p.T152A|C3orf15_uc010hra.1_5'UTR	NM_033364	NP_203528	Q7Z4T9	AAT1_HUMAN	AAT1-alpha	172						mitochondrion	protein binding			ovary(2)|pancreas(1)	3				GBM - Glioblastoma multiforme(114;0.186)		AGAACCATACACTTTTCCTCC	0.368													50	131					0	0	0.003610	0	0	
STXBP5L	9515	broad.mit.edu	37	3	120957879	120957879	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:120957879G>A	uc003eec.3	+	13	1386	c.1246G>A	c.(1246-1248)GCA>ACA	p.A416T	STXBP5L_uc011bji.1_Missense_Mutation_p.A416T	NM_014980	NP_055795	Q9Y2K9	STB5L_HUMAN	syntaxin binding protein 5-like	416	WD 8.				exocytosis|protein transport	cytoplasm|integral to membrane|plasma membrane				ovary(7)|skin(2)	9				GBM - Glioblastoma multiforme(114;0.0694)		TACATGCACAGCATACTTTGC	0.318													4	50					0	0	0.009096	0	0	
POLQ	10721	broad.mit.edu	37	3	121228903	121228903	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:121228903G>A	uc003eee.3	-	11	1928	c.1799C>T	c.(1798-1800)GCC>GTC	p.A600V		NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	600					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		TCCATCACTGGCTTCTGTACT	0.413								DNA_polymerases_(catalytic_subunits)					9	74					0	0	0.004482	0	0	
GOLGB1	2804	broad.mit.edu	37	3	121414107	121414107	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:121414107C>T	uc003eei.3	-	13	5374	c.5248G>A	c.(5248-5250)GAC>AAC	p.D1750N	GOLGB1_uc010hrc.2_Missense_Mutation_p.D1755N|GOLGB1_uc003eej.3_Missense_Mutation_p.D1716N|GOLGB1_uc011bjm.1_Missense_Mutation_p.D1636N|GOLGB1_uc010hrd.1_Missense_Mutation_p.D1714N	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	1750	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		CTTAGAGAGTCTTTCTCAGAC	0.378													10	101					0	0	0.008291	0	0	
GOLGB1	2804	broad.mit.edu	37	3	121417211	121417211	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:121417211G>A	uc003eei.3	-	13	2270	c.2144C>T	c.(2143-2145)GCT>GTT	p.A715V	GOLGB1_uc010hrc.2_Missense_Mutation_p.A720V|GOLGB1_uc003eej.3_Missense_Mutation_p.A681V|GOLGB1_uc011bjm.1_Missense_Mutation_p.A601V|GOLGB1_uc010hrd.1_Missense_Mutation_p.A679V	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	715	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		AATTTCCTTAGCTTTCTCATC	0.363													18	45					0	0	0.007413	0	0	
CASR	846	broad.mit.edu	37	3	122002869	122002869	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:122002869C>T	uc003eev.3	+	7	2440	c.2068C>T	c.(2068-2070)CTC>TTC	p.L690F	CASR_uc003eew.3_Missense_Mutation_p.L700F	NM_000388	NP_000379	P41180	CASR_HUMAN	calcium-sensing receptor precursor	690	Helical; Name=3; (Potential).				anatomical structure morphogenesis|calcium ion import|cellular calcium ion homeostasis|chemosensory behavior|detection of calcium ion|ossification	integral to plasma membrane	G-protein coupled receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(2)|upper_aerodigestive_tract(1)	7				GBM - Glioblastoma multiforme(114;0.226)	Cinacalcet(DB01012)	CAGCTTCGTGCTCTGCATCTC	0.617													11	34					0	0	0.001368	0	0	
MYLK	4638	broad.mit.edu	37	3	123471267	123471267	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:123471267G>A	uc003ego.2	-	5	566	c.284C>T	c.(283-285)GCT>GTT	p.A95V	MYLK_uc011bjw.1_Missense_Mutation_p.A95V|MYLK_uc003egp.2_Missense_Mutation_p.A95V|MYLK_uc003egq.2_Missense_Mutation_p.A95V|MYLK_uc003egr.2_Missense_Mutation_p.A95V|MYLK_uc003egs.2_Intron|MYLK_uc010hrs.1_Missense_Mutation_p.A95V|MYLK_uc003egu.1_Missense_Mutation_p.A105V	NM_053025	NP_444253	Q15746	MYLK_HUMAN	myosin light chain kinase isoform 1	95	Ig-like C2-type 1.				aorta smooth muscle tissue morphogenesis|muscle contraction	cytosol	actin binding|ATP binding|calmodulin binding|metal ion binding|myosin light chain kinase activity			ovary(6)|skin(2)|stomach(1)	9		Lung NSC(201;0.0496)		GBM - Glioblastoma multiforme(114;0.0736)		CTCATGGACAGCATGAATCAC	0.587													5	50					0	0	0.000602	0	0	
CCDC14	64770	broad.mit.edu	37	3	123633803	123633803	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:123633803G>A	uc011bjx.1	-	13	2776	c.2685C>T	c.(2683-2685)GGC>GGT	p.G895G	CCDC14_uc003egv.3_Silent_p.G536G|CCDC14_uc003egx.3_Silent_p.G695G|CCDC14_uc010hrt.2_Silent_p.G854G|CCDC14_uc003egy.3_Silent_p.G695G|CCDC14_uc003egz.2_3'UTR	NM_022757	NP_073594	Q49A88	CCD14_HUMAN	coiled-coil domain containing 14	895						centrosome					0		Lung NSC(201;0.0371)|Prostate(884;0.0405)|Myeloproliferative disorder(1037;0.205)		Lung(219;0.00942)|GBM - Glioblastoma multiforme(114;0.159)		AGACAGTATTGCCTTTCACTT	0.458													7	76					0	0	0.001984	0	0	
CCDC37	348807	broad.mit.edu	37	3	126153218	126153218	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:126153218G>A	uc003eiu.1	+	15	1721	c.1622G>A	c.(1621-1623)CGC>CAC	p.R541H	CCDC37_uc010hsg.1_Missense_Mutation_p.R542H	NM_182628	NP_872434	Q494V2	CCD37_HUMAN	coiled-coil domain containing 37	541	Potential.									ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(114;0.166)		AAGGAGCGGCGCATCAGGTGA	0.622													4	14					0	0	0.000602	0	0	
PLXNA1	5361	broad.mit.edu	37	3	126708525	126708525	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:126708525G>A	uc003ejg.2	+	1	1024	c.1020G>A	c.(1018-1020)AGG>AGA	p.R340R		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	363	Sema.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		TCACGCTCAGGGCCATCAAGG	0.597													6	71					0	0	0.006214	0	0	
PLXNA1	5361	broad.mit.edu	37	3	126733356	126733356	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:126733356G>A	uc003ejg.2	+	12	2575	c.2571G>A	c.(2569-2571)ACG>ACA	p.T857T		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	880	IPT/TIG 1.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		AGGGCGGCACGCGGCTCACTA	0.692													3	9					0	0	0.000602	0	0	
PLXNA1	5361	broad.mit.edu	37	3	126733466	126733466	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:126733466C>T	uc003ejg.2	+	12	2685	c.2681C>T	c.(2680-2682)GCG>GTG	p.A894V		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	917	IPT/TIG 1.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		TACATCAGTGCGGAGCAGTGA	0.562													5	23					0	0	0.001984	0	0	
PLXNA1	5361	broad.mit.edu	37	3	126733645	126733645	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:126733645G>A	uc003ejg.2	+	13	2783	c.2779G>A	c.(2779-2781)GCC>ACC	p.A927T		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	950	IPT/TIG 1.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		ACACTACCGCGCCCTGTCACC	0.642													8	12					0	0	0.000978	0	0	
MCM2	4171	broad.mit.edu	37	3	127323952	127323952	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:127323952G>A	uc003ejp.2	+	4	683	c.626G>A	c.(625-627)AGC>AAC	p.S209N	MCM2_uc011bkm.1_Missense_Mutation_p.S79N|MCM2_uc010hsl.2_RNA|MCM2_uc011bkn.1_Missense_Mutation_p.S93N	NM_004526	NP_004517	P49736	MCM2_HUMAN	minichromosome maintenance complex component 2	209	Interaction with MYST2 (By similarity).				cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	chromatin|MCM complex	ATP binding|helicase activity|metal ion binding			ovary(3)|skin(1)	4						CACGTCGACAGCCACGGCCAC	0.627													8	63					0	0	0.003080	0	0	
MCM2	4171	broad.mit.edu	37	3	127340010	127340010	+	Missense_Mutation	SNP	G	A	A	rs137990158		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:127340010G>A	uc003ejp.2	+	15	2600	c.2543G>A	c.(2542-2544)CGC>CAC	p.R848H	MCM2_uc011bkm.1_Missense_Mutation_p.R718H|MCM2_uc010hsl.2_RNA|MCM2_uc011bkn.1_Missense_Mutation_p.R801H	NM_004526	NP_004517	P49736	MCM2_HUMAN	minichromosome maintenance complex component 2	848					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	chromatin|MCM complex	ATP binding|helicase activity|metal ion binding			ovary(3)|skin(1)	4						ACATATCAGCGCAACCGCTTT	0.547													19	40					0	0	0.006122	0	0	
ABTB1	80325	broad.mit.edu	37	3	127396374	127396374	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:127396374C>T	uc003ejt.2	+	9	917	c.829C>T	c.(829-831)CGA>TGA	p.R277*	ABTB1_uc003ejr.2_Nonsense_Mutation_p.R135*|ABTB1_uc003ejs.2_Nonsense_Mutation_p.R252*|ABTB1_uc003eju.2_Nonsense_Mutation_p.R135*|ABTB1_uc010hsm.2_Intron	NM_172027	NP_742024	Q969K4	ABTB1_HUMAN	ankyrin repeat and BTB (POZ) domain containing 1	277	BTB 2.					cytoplasm|nucleolus|plasma membrane	translation elongation factor activity				0						CATCTGCTTCCGAGTGGCTGG	0.632													11	27					0	0	0.000978	0	0	
KBTBD12	166348	broad.mit.edu	37	3	127646815	127646815	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:127646815G>A	uc010hsr.2	+	2	1282	c.1279G>A	c.(1279-1281)GCA>ACA	p.A427T	KBTBD12_uc003ejy.3_Missense_Mutation_p.A34T|KBTBD12_uc010hsq.2_Intron|KBTBD12_uc003eka.3_Intron|KBTBD12_uc003ejz.2_Missense_Mutation_p.A427T	NM_207335	NP_997218	Q3ZCT8	KBTBC_HUMAN	kelch domain containing 6	427	Kelch 1.									ovary(1)	1						ACTGCAATTGGCATGTCATGC	0.383													26	54					0	0	0.004656	0	0	
COPG	22820	broad.mit.edu	37	3	128990627	128990627	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:128990627C>T	uc003els.2	+	19	1961	c.1861C>T	c.(1861-1863)CCA>TCA	p.P621S	COPG_uc010htb.2_Missense_Mutation_p.P527S	NM_016128	NP_057212	Q9Y678	COPG_HUMAN	coatomer protein complex, subunit gamma 1	621	Interaction with ZNF289/ARFGAP2.				COPI coating of Golgi vesicle|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol	protein binding|structural molecule activity			ovary(3)|breast(1)	4						GGCAGCAGTGCCAGAGTTCCG	0.547													13	33					0	0	0.001368	0	0	
COPG	22820	broad.mit.edu	37	3	128991723	128991723	+	Silent	SNP	C	T	T	rs146536439		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:128991723C>T	uc003els.2	+	21	2332	c.2232C>T	c.(2230-2232)GAC>GAT	p.D744D	COPG_uc010htb.2_Silent_p.D650D	NM_016128	NP_057212	Q9Y678	COPG_HUMAN	coatomer protein complex, subunit gamma 1	744	Interaction with ZNF289/ARFGAP2.				COPI coating of Golgi vesicle|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol	protein binding|structural molecule activity			ovary(3)|breast(1)	4						AGACTGATGACGAAGGCTATG	0.512													5	56					0	0	0.001984	0	0	
IFT122	55764	broad.mit.edu	37	3	129238561	129238561	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:129238561C>A	uc003emm.2	+	29	3828	c.3622C>A	c.(3622-3624)CCC>ACC	p.P1208T	IFT122_uc003eml.2_Missense_Mutation_p.P1259T|IFT122_uc003emn.2_Missense_Mutation_p.P1149T|IFT122_uc003emo.2_Missense_Mutation_p.P1098T|IFT122_uc003emp.2_Missense_Mutation_p.P1058T|IFT122_uc010htc.2_Missense_Mutation_p.P1201T|IFT122_uc011bky.1_Missense_Mutation_p.P999T|IFT122_uc003emq.2_Missense_Mutation_p.P1048T|IFT122_uc003emr.2_Missense_Mutation_p.P961T|IFT122_uc011bla.1_Missense_Mutation_p.P982T|IFT122_uc010hte.2_Missense_Mutation_p.P534T|IFT122_uc003ems.2_Missense_Mutation_p.P590T	NM_052989	NP_443715	Q9HBG6	IF122_HUMAN	WD repeat domain 10 isoform 2	1208					camera-type eye morphogenesis|cilium morphogenesis|embryonic body morphogenesis|embryonic heart tube development|limb development|neural tube closure	microtubule basal body|photoreceptor connecting cilium				ovary(1)|skin(1)	2						TACCATGTGCCCCTCCTGCTT	0.617													29	65					1.99505e-19	2.18414e-19	0.002445	1	0	
ATP2C1	27032	broad.mit.edu	37	3	130716497	130716497	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:130716497G>A	uc003enl.2	+	25	2513	c.2291G>A	c.(2290-2292)CGC>CAC	p.R764H	ATP2C1_uc011blg.1_Missense_Mutation_p.R798H|ATP2C1_uc011blh.1_Missense_Mutation_p.R759H|ATP2C1_uc011bli.1_Missense_Mutation_p.R798H|ATP2C1_uc003enk.2_Missense_Mutation_p.R748H|ATP2C1_uc003enm.2_Missense_Mutation_p.R764H|ATP2C1_uc003enn.2_Missense_Mutation_p.R748H|ATP2C1_uc003eno.2_Missense_Mutation_p.R764H|ATP2C1_uc003enp.2_Missense_Mutation_p.R764H|ATP2C1_uc003enq.2_Missense_Mutation_p.R764H|ATP2C1_uc003enr.2_Missense_Mutation_p.R764H|ATP2C1_uc003ens.2_Missense_Mutation_p.R764H|ATP2C1_uc003ent.2_Missense_Mutation_p.R764H|ATP2C1_uc003enu.2_Missense_Mutation_p.R442H	NM_014382	NP_055197	P98194	AT2C1_HUMAN	calcium-transporting ATPase 2C1 isoform 1a	764	Cytoplasmic (By similarity).				actin cytoskeleton reorganization|ATP biosynthetic process|calcium-dependent cell-cell adhesion|cellular calcium ion homeostasis|cellular manganese ion homeostasis|epidermis development|Golgi calcium ion homeostasis|Golgi calcium ion transport|positive regulation of I-kappaB kinase/NF-kappaB cascade	Golgi apparatus|Golgi membrane|integral to membrane|trans-Golgi network	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|manganese ion binding|manganese-transporting ATPase activity|metal ion binding|signal transducer activity			skin(1)	1					Arsenic trioxide(DB01169)|Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Miconazole(DB01110)|Sevoflurane(DB01236)	AAACCTCCTCGCAACTGGAAA	0.343									Hailey-Hailey_disease				28	82					0	0	0.009535	0	0	
DNAJC13	23317	broad.mit.edu	37	3	132207227	132207227	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:132207227G>A	uc003eor.2	+	30	3418	c.3353G>A	c.(3352-3354)CGC>CAC	p.R1118H		NM_015268	NP_056083	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	1118							heat shock protein binding			ovary(1)|breast(1)	2						CAGTTACCCCGCCTTTATCTG	0.373													5	76					0	0	0.001984	0	0	
NPHP3	27031	broad.mit.edu	37	3	132403466	132403466	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:132403466C>T	uc003epe.1	-	24	3579	c.3502G>A	c.(3502-3504)GCA>ACA	p.A1168T	NPHP3_uc003eoz.1_Missense_Mutation_p.A47T|NPHP3_uc003epd.1_Missense_Mutation_p.A410T	NM_153240	NP_694972	Q7Z494	NPHP3_HUMAN	nephrocystin 3	1168	TPR 8.				maintenance of organ identity|negative regulation of canonical Wnt receptor signaling pathway|photoreceptor cell maintenance|regulation of Wnt receptor signaling pathway, planar cell polarity pathway|Wnt receptor signaling pathway	cilium	protein binding			ovary(1)	1						GGAGCTAATGCACGTCTCCGA	0.368													5	53					0	0	0.000602	0	0	
NPHP3	27031	broad.mit.edu	37	3	132407734	132407734	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:132407734G>A	uc003epe.1	-	21	2962	c.2885C>T	c.(2884-2886)GCC>GTC	p.A962V	NPHP3_uc003epd.1_Missense_Mutation_p.A204V	NM_153240	NP_694972	Q7Z494	NPHP3_HUMAN	nephrocystin 3	962	TPR 4.				maintenance of organ identity|negative regulation of canonical Wnt receptor signaling pathway|photoreceptor cell maintenance|regulation of Wnt receptor signaling pathway, planar cell polarity pathway|Wnt receptor signaling pathway	cilium	protein binding			ovary(1)	1						AGGTACTATGGCCTGGGGGGA	0.433													9	41					0	0	0.004482	0	0	
TOPBP1	11073	broad.mit.edu	37	3	133347516	133347516	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:133347516G>A	uc003eps.2	-	15	2714	c.2582C>T	c.(2581-2583)ACG>ATG	p.T861M	TOPBP1_uc003ept.1_5'Flank	NM_007027	NP_008958	Q92547	TOPB1_HUMAN	topoisomerase (DNA) II binding protein 1	861					DNA repair|response to ionizing radiation	microtubule organizing center|PML body|spindle pole	DNA binding|protein C-terminus binding			ovary(2)|kidney(2)|skin(1)|lung(1)|pancreas(1)	7						TGAGAGTGGCGTACTCGGTTT	0.418								Other_conserved_DNA_damage_response_genes					6	17					0	0	0.001168	0	0	
TOPBP1	11073	broad.mit.edu	37	3	133375669	133375669	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:133375669G>A	uc003eps.2	-	5	528	c.396C>T	c.(394-396)GGC>GGT	p.G132G		NM_007027	NP_008958	Q92547	TOPB1_HUMAN	topoisomerase (DNA) II binding protein 1	132	BRCT 1.				DNA repair|response to ionizing radiation	microtubule organizing center|PML body|spindle pole	DNA binding|protein C-terminus binding			ovary(2)|kidney(2)|skin(1)|lung(1)|pancreas(1)	7						ATACTCGTCCGCCCATCATTT	0.373								Other_conserved_DNA_damage_response_genes					31	255					0	0	0.003755	0	0	
RAB6B	51560	broad.mit.edu	37	3	133557073	133557073	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:133557073G>A	uc003epy.2	-	6	813	c.432C>T	c.(430-432)CGC>CGT	p.R144R	RAB6B_uc011blu.1_Silent_p.R131R	NM_016577	NP_057661	Q9NRW1	RAB6B_HUMAN	RAB6B, member RAS oncogene family	144					protein transport|retrograde vesicle-mediated transport, Golgi to ER|small GTPase mediated signal transduction	cytoplasmic membrane-bounded vesicle|Golgi membrane	GTP binding|GTPase activity|protein binding			pancreas(1)	1						GTTCTTTGGCGCGCTGCTCCC	0.498													31	95					0	0	0.003271	0	0	
AMOTL2	51421	broad.mit.edu	37	3	134090186	134090186	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:134090186C>T	uc003eqf.2	-	2	381	c.264G>A	c.(262-264)ACG>ACA	p.T88T	AMOTL2_uc003eqg.1_Silent_p.T30T|AMOTL2_uc003eqh.1_Silent_p.T30T	NM_016201	NP_057285	Q9Y2J4	AMOL2_HUMAN	angiomotin like 2	30										large_intestine(1)	1						TGGCTAGCAGCGTGCGCGTCT	0.657													6	10					0	0	0.003080	0	0	
STAG1	10274	broad.mit.edu	37	3	136287655	136287655	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:136287655C>T	uc003era.1	-	5	638	c.346G>A	c.(346-348)GCA>ACA	p.A116T	STAG1_uc003erb.1_Missense_Mutation_p.A116T|STAG1_uc003erc.1_5'UTR|STAG1_uc010hua.1_5'UTR|STAG1_uc003erd.2_Missense_Mutation_p.A19T|STAG1_uc003ere.2_Missense_Mutation_p.A116T	NM_005862	NP_005853	Q8WVM7	STAG1_HUMAN	stromal antigen 1	116					cell division|chromosome segregation|mitotic metaphase/anaphase transition|mitotic prometaphase	cell junction|chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(2)	2						TCCAGAAGTGCGATGTCCCTG	0.348													5	41					0	0	0.001168	0	0	
IL20RB	53833	broad.mit.edu	37	3	136677037	136677037	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:136677037C>T	uc003eri.1	+	1	331	c.82C>T	c.(82-84)CTC>TTC	p.L28F	IL20RB_uc003erj.1_RNA	NM_144717	NP_653318	Q6UXL0	I20RB_HUMAN	interleukin 20 receptor beta precursor	28						integral to membrane	receptor activity			ovary(1)	1						TCCATGTTTGCTCACAGGTAA	0.383													5	97					0	0	0.001168	0	0	
MRPS22	56945	broad.mit.edu	37	3	139074577	139074577	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:139074577G>A	uc003etb.2	+	7	940	c.932G>A	c.(931-933)GGC>GAC	p.G311D	MRPS22_uc003etc.2_RNA|MRPS22_uc003etd.2_Missense_Mutation_p.G310D|MRPS22_uc003ete.2_Missense_Mutation_p.G270D	NM_020191	NP_064576	P82650	RT22_HUMAN	mitochondrial ribosomal protein S22	311						mitochondrial small ribosomal subunit	protein binding|structural constituent of ribosome			ovary(2)|skin(1)	3						CATCCAGATGGCCAGTCGGCT	0.418													4	37					0	0	0.001168	0	0	
COPB2	9276	broad.mit.edu	37	3	139080062	139080062	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:139080062G>A	uc003etf.3	-	17	2201	c.2071C>T	c.(2071-2073)CAT>TAT	p.H691Y	COPB2_uc011bmv.1_Missense_Mutation_p.H662Y|COPB2_uc010hui.2_Missense_Mutation_p.H662Y	NM_004766	NP_004757	P35606	COPB2_HUMAN	coatomer protein complex, subunit beta 2 (beta	691					COPI coating of Golgi vesicle|intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol	protein binding|structural molecule activity			ovary(2)	2						TGTGCATGATGCAGGCACTCC	0.478													7	95					0	0	0.004482	0	0	
CLSTN2	64084	broad.mit.edu	37	3	140167437	140167437	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:140167437C>T	uc003etn.2	+	6	1054	c.864C>T	c.(862-864)TGC>TGT	p.C288C	CLSTN2_uc003etm.2_Silent_p.C288C	NM_022131	NP_071414	Q9H4D0	CSTN2_HUMAN	calsyntenin 2 precursor	288	Extracellular (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			skin(3)|large_intestine(2)|pancreas(1)|central_nervous_system(1)	7						TGGAGACGTGCGATGGAGCCG	0.532										HNSCC(16;0.037)			10	106					0	0	0.008291	0	0	
TRIM42	287015	broad.mit.edu	37	3	140401502	140401502	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:140401502C>T	uc003eto.1	+	2	731	c.540C>T	c.(538-540)ACC>ACT	p.T180T		NM_152616	NP_689829	Q8IWZ5	TRI42_HUMAN	tripartite motif-containing 42	180	RING-type.					intracellular	zinc ion binding			lung(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|central_nervous_system(1)	7						CCGAGGTCACCGAGAACTTCT	0.622													16	31					0	0	0.006122	0	0	
RASA2	5922	broad.mit.edu	37	3	141231095	141231095	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:141231095G>A	uc003etz.1	+	2	224	c.224G>A	c.(223-225)CGT>CAT	p.R75H	RASA2_uc010huq.1_Missense_Mutation_p.R75H|RASA2_uc003eua.1_Missense_Mutation_p.R75H	NM_006506	NP_006497	Q15283	RASA2_HUMAN	RAS p21 protein activator 2	75	C2 1.				intracellular signal transduction|negative regulation of Ras protein signal transduction	intracellular membrane-bounded organelle|intrinsic to internal side of plasma membrane|perinuclear region of cytoplasm	metal ion binding|Ras GTPase activator activity	p.R75H(1)		ovary(2)|lung(2)|breast(1)|skin(1)	6						GAAGTTTATCGTACCCAAGTT	0.308													25	70					0	0	0.004656	0	0	
ATR	545	broad.mit.edu	37	3	142266699	142266699	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:142266699C>T	uc003eux.3	-	16	3347	c.3225G>A	c.(3223-3225)TTG>TTA	p.L1075L		NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	1075					cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity			lung(5)|skin(5)|breast(4)|ovary(3)|stomach(1)|central_nervous_system(1)|liver(1)	20						ATTCATTATGCAATCCTTGGA	0.343								Other_conserved_DNA_damage_response_genes					5	71					0	0	0.001984	0	0	
AGTR1	185	broad.mit.edu	37	3	148458931	148458931	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:148458931A>G	uc003ewg.2	+	4	555	c.109A>G	c.(109-111)ATC>GTC	p.I37V	AGTR1_uc003ewh.2_Missense_Mutation_p.I37V|AGTR1_uc003ewi.2_Missense_Mutation_p.I37V|AGTR1_uc003ewj.2_Missense_Mutation_p.I37V|AGTR1_uc003ewk.2_Missense_Mutation_p.I37V	NM_031850	NP_114038	P30556	AGTR1_HUMAN	angiotensin II receptor, type 1	37	Helical; Name=1; (Potential).				calcium-mediated signaling|cell chemotaxis|elevation of cytosolic calcium ion concentration involved in G-protein signaling coupled to IP3 second messenger|kidney development|low-density lipoprotein particle remodeling|positive regulation of cellular protein metabolic process|positive regulation of cholesterol esterification|positive regulation of inflammatory response|positive regulation of NAD(P)H oxidase activity|positive regulation of phospholipase A2 activity|positive regulation of reactive oxygen species metabolic process|regulation of cell growth|regulation of cell proliferation|regulation of renal sodium excretion|regulation of vasoconstriction|renin-angiotensin regulation of aldosterone production|Rho protein signal transduction		acetyltransferase activator activity|angiotensin type I receptor activity|angiotensin type II receptor activity|bradykinin receptor binding|protein heterodimerization activity				0			LUSC - Lung squamous cell carcinoma(72;0.127)|Lung(72;0.152)		Candesartan(DB00796)|Eprosartan(DB00876)|Forasartan(DB01342)|Irbesartan(DB01029)|Losartan(DB00678)|Olmesartan(DB00275)|Saprisartan(DB01347)|Spironolactone(DB00421)|Tasosartan(DB01349)|Telmisartan(DB00966)|Valsartan(DB00177)	TTTATACAGTATCATCTTTGT	0.348													3	75					0	0	0.000602	0	0	
CPB1	1360	broad.mit.edu	37	3	148558742	148558742	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:148558742C>T	uc003ewl.2	+	5	477	c.454C>T	c.(454-456)CGC>TGC	p.R152C		NM_001871	NP_001862	P15086	CBPB1_HUMAN	pancreatic carboxypeptidase B1 preproprotein	152					proteolysis	extracellular region	metallocarboxypeptidase activity|zinc ion binding	p.R152C(1)		ovary(1)|central_nervous_system(1)|skin(1)	3			LUSC - Lung squamous cell carcinoma(72;0.0934)|Lung(72;0.115)			ATTTGAGGGACGCGCTATTTA	0.428													15	120					0	0	0.004007	0	0	
GYG1	2992	broad.mit.edu	37	3	148741973	148741973	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:148741973C>A	uc003ewn.2	+	6	795	c.742C>A	c.(742-744)CTG>ATG	p.L248M	GYG1_uc011bnp.1_3'UTR|GYG1_uc003ewo.2_Missense_Mutation_p.L248M|GYG1_uc003ewp.2_Intron	NM_004130	NP_004121	P46976	GLYG_HUMAN	glycogenin 1	248					glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	glycogenin glucosyltransferase activity|metal ion binding|protein binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)			GTTTCTCATCCTGTGGTGGAA	0.423													7	120					0.00307968	0.00319789	0.003080	1	0	
HLTF	6596	broad.mit.edu	37	3	148781227	148781227	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:148781227C>T	uc003ewq.1	-	10	1369	c.1151G>A	c.(1150-1152)CGC>CAC	p.R384H	HLTF_uc003ewr.1_Missense_Mutation_p.R384H|HLTF_uc003ews.1_Missense_Mutation_p.R384H|HLTF_uc010hve.1_Missense_Mutation_p.R384H	NM_139048	NP_620636	Q14527	HLTF_HUMAN	helicase-like transcription factor	384					chromatin modification|transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)			CCTTTTGGGGCGGGAGCTAGA	0.308													13	70					0	0	0.003163	0	0	
CP	1356	broad.mit.edu	37	3	148904520	148904520	+	Splice_Site	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:148904520C>T	uc003ewy.3	-	11	2118	c.1865_splice	c.e11-1	p.S622_splice	CP_uc011bnr.1_Intron|CP_uc003ewx.3_Splice_Site_p.S403_splice|CP_uc003ewz.2_Splice_Site_p.S622_splice|CP_uc010hvf.1_Intron	NM_000096	NP_000087	P00450	CERU_HUMAN	ceruloplasmin precursor						cellular iron ion homeostasis|copper ion transport|transmembrane transport	extracellular space	chaperone binding|ferroxidase activity			ovary(1)	1		Prostate(884;0.00217)|Hepatocellular(537;0.00826)|Myeloproliferative disorder(1037;0.0122)|all_neural(597;0.0189)|Melanoma(1037;0.152)	LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)		Drotrecogin alfa(DB00055)	CCATTCATGGCTGTAAAAGTT	0.408													3	50					0	0	0.009096	0	0	
PFN2	5217	broad.mit.edu	37	3	149684317	149684317	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:149684317C>T	uc003ext.1	-	3	480	c.382G>A	c.(382-384)GCA>ACA	p.A128T	PFN2_uc003exs.1_Intron|PFN2_uc003exu.1_Intron|PFN2_uc011bnu.1_Intron	NM_053024	NP_444252	P35080	PROF2_HUMAN	profilin 2 isoform a	128					actin cytoskeleton organization|regulation of actin polymerization or depolymerization	actin cytoskeleton|cytoplasm	actin binding|phosphatidylinositol-4,5-bisphosphate binding				0			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			ATTGAGTATGCCTTCTTATTC	0.388													10	344					0	0	0.006214	0	0	
SIAH2	6478	broad.mit.edu	37	3	150460413	150460413	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:150460413G>A	uc003eyi.2	-	2	1117	c.490C>T	c.(490-492)CGT>TGT	p.R164C		NM_005067	NP_005058	O43255	SIAH2_HUMAN	seven in absentia homolog 2	164	SIAH-type.|SBD.				apoptosis|axon guidance|cell cycle|negative regulation of canonical Wnt receptor signaling pathway|small GTPase mediated signal transduction|ubiquitin-dependent protein catabolic process	cytosol|nucleus	transcription corepressor activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)	2			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			GAGTAGGGACGGTATTCACAT	0.532													6	55					0	0	0.003080	0	0	
MED12L	116931	broad.mit.edu	37	3	150877785	150877785	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:150877785G>A	uc003eyp.2	+	7	1042	c.1004G>A	c.(1003-1005)GGC>GAC	p.G335D	MED12L_uc011bnz.1_Intron|MED12L_uc003eyn.2_Missense_Mutation_p.G335D|MED12L_uc003eyo.2_Missense_Mutation_p.G335D	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	335					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			CCCAGCCCTGGCCCCCCCGGC	0.582													5	68					0	0	0.000602	0	0	
IGSF10	285313	broad.mit.edu	37	3	151176330	151176330	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:151176330C>T	uc011bod.1	-	1	168	c.168G>A	c.(166-168)CCG>CCA	p.P56P		NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	56	LRRNT.				cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			CCACATTGGGCGGGATGCTGT	0.537													11	29					0	0	0.001368	0	0	
SGEF	26084	broad.mit.edu	37	3	153840497	153840497	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:153840497G>A	uc011bog.1	+	2	927	c.716G>A	c.(715-717)AGC>AAC	p.S239N	uc003ezu.1_5'Flank|SGEF_uc011boh.1_Missense_Mutation_p.S239N	NM_015595	NP_056410	Q96DR7	ARHGQ_HUMAN	Src homology 3 domain-containing guanine	239					regulation of Rho protein signal transduction	intracellular|ruffle	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			AGTACAAACAGCCCCGCCGCC	0.512													3	6					0	0	0.000602	0	0	
SGEF	26084	broad.mit.edu	37	3	153935682	153935682	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:153935682G>A	uc011bog.1	+	10	2081	c.1870G>A	c.(1870-1872)GCC>ACC	p.A624T	SGEF_uc011boh.1_Missense_Mutation_p.A624T	NM_015595	NP_056410	Q96DR7	ARHGQ_HUMAN	Src homology 3 domain-containing guanine	624					regulation of Rho protein signal transduction	intracellular|ruffle	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			CAATGAGGGCGCCCGGAAGAT	0.438													9	16					0	0	0.006214	0	0	
DHX36	170506	broad.mit.edu	37	3	154022736	154022736	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:154022736C>T	uc003ezy.3	-	8	1075	c.994G>A	c.(994-996)GTA>ATA	p.V332I	DHX36_uc010hvq.2_Missense_Mutation_p.V332I|DHX36_uc003ezz.3_Missense_Mutation_p.V332I	NM_020865	NP_065916	Q9H2U1	DHX36_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 36	332	Helicase ATP-binding.					cytoplasm|nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			TCATCAAGTACGATATGACTA	0.294													15	52					0	0	0.003163	0	0	
GPR149	344758	broad.mit.edu	37	3	154055676	154055676	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:154055676C>T	uc003faa.2	-	4	2108	c.2008G>A	c.(2008-2010)GCC>ACC	p.A670T		NM_001038705	NP_001033794	Q86SP6	GP149_HUMAN	G protein-coupled receptor 149	670	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(6)	6			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			GAGTATGAGGCTGTTTCCCCT	0.438													40	138					0	0	0.006999	0	0	
PLCH1	23007	broad.mit.edu	37	3	155203197	155203197	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:155203197C>T	uc011bok.1	-	22	3223	c.2946G>A	c.(2944-2946)TCG>TCA	p.S982S	PLCH1_uc011boj.1_Silent_p.S982S|PLCH1_uc011bol.1_Silent_p.S944S	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	982					lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			ATACAGGCAGCGACAAAGCTC	0.468													6	82					0	0	0.003080	0	0	
PLCH1	23007	broad.mit.edu	37	3	155215148	155215148	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:155215148A>G	uc011bok.1	-	14	2096	c.1819T>C	c.(1819-1821)TAC>CAC	p.Y607H	PLCH1_uc011boj.1_Missense_Mutation_p.Y607H|PLCH1_uc011bol.1_Missense_Mutation_p.Y589H	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	607	PI-PLC Y-box.				lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			GAGTTTGTGTACACAACCAAA	0.453													6	88					0	0	0.001984	0	0	
GMPS	8833	broad.mit.edu	37	3	155639982	155639982	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:155639982G>A	uc003faq.2	+	11	1660	c.1325G>A	c.(1324-1326)GGC>GAC	p.G442D	GMPS_uc011bom.1_Missense_Mutation_p.G343D	NM_003875	NP_003866	P49915	GUAA_HUMAN	guanine monophosphate synthetase	442					glutamine metabolic process|purine base biosynthetic process	cytosol	ATP binding|GMP synthase (glutamine-hydrolyzing) activity|GMP synthase activity			ovary(2)|lung(1)	3			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)		L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	TTAGGTCCTGGCCTGGCAATC	0.259			T	MLL	AML								3	15					0	0	0.004672	0	0	
SSR3	6747	broad.mit.edu	37	3	156272757	156272757	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:156272757G>A	uc003fau.2	-	1	179	c.122C>T	c.(121-123)GCC>GTC	p.A41V	SSR3_uc011bop.1_Missense_Mutation_p.A41V	NM_007107	NP_009038	Q9UNL2	SSRG_HUMAN	signal sequence receptor gamma subunit	41	Helical; (Potential).				cotranslational protein targeting to membrane	integral to endoplasmic reticulum membrane|microsome|Sec61 translocon complex	protein binding|signal sequence binding				0			LUSC - Lung squamous cell carcinoma(72;0.0461)|Lung(72;0.0465)			GATGGGGATGGCAGACACGAT	0.652													7	16					0	0	0.008291	0	0	
TIPARP	25976	broad.mit.edu	37	3	156396186	156396186	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:156396186A>C	uc003fav.2	+	2	948	c.700A>C	c.(700-702)ACT>CCT	p.T234P	LOC100287227_uc011boq.1_5'Flank|TIPARP_uc003faw.2_Missense_Mutation_p.T234P	NM_015508	NP_056323	Q7Z3E1	PARPT_HUMAN	TCDD-inducible poly(ADP-ribose) polymerase	234							NAD+ ADP-ribosyltransferase activity|nucleic acid binding|protein binding|zinc ion binding			ovary(1)|breast(1)	2			LUSC - Lung squamous cell carcinoma(72;0.0461)|Lung(72;0.0465)			GCAGTACCACACTCACCAAGA	0.463													11	125					0	0	0.001368	0	0	
RSRC1	51319	broad.mit.edu	37	3	157920883	157920883	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:157920883C>T	uc003fbt.2	+	4	454	c.343C>T	c.(343-345)CGT>TGT	p.R115C	RSRC1_uc011bou.1_Intron|RSRC1_uc003fbu.1_Missense_Mutation_p.R115C|RSRC1_uc003fbv.2_Intron	NM_016625	NP_057709	Q96IZ7	RSRC1_HUMAN	arginine/serine-rich coiled-coil 1	115	Arg/Ser-rich.				nucleocytoplasmic transport	cytoplasm|nuclear speck	protein binding				0			Lung(72;0.00416)|LUSC - Lung squamous cell carcinoma(72;0.00575)			ACCTCGTCTCCGTTCTCATAG	0.383													4	64					0	0	0.000602	0	0	
SMC4	10051	broad.mit.edu	37	3	160138560	160138560	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:160138560C>T	uc003fdh.2	+	13	2003	c.1890C>T	c.(1888-1890)GAC>GAT	p.D630D	IFT80_uc003fda.2_Intron|SMC4_uc010hwc.1_Silent_p.D394D|SMC4_uc003fdi.2_Silent_p.D605D|SMC4_uc003fdj.2_Silent_p.D630D|SMC4_uc010hwd.2_Silent_p.D630D|SMC4_uc003fdl.2_Silent_p.D333D	NM_001002800	NP_001002800	Q9NTJ3	SMC4_HUMAN	SMC4 structural maintenance of chromosomes	630	Flexible hinge.				cell division|mitotic chromosome condensation	condensin complex|cytoplasm|nucleus	ATP binding|protein heterodimerization activity			ovary(1)|breast(1)	2			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			AAAAATACGACGTGGCTATAT	0.378													15	99					0	0	0.006122	0	0	
SI	6476	broad.mit.edu	37	3	164709998	164709998	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:164709998G>A	uc003fei.2	-	43	5012	c.4950C>T	c.(4948-4950)TAC>TAT	p.Y1650Y		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	1650	Sucrase.|Lumenal.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|brush border|Golgi apparatus|integral to membrane	carbohydrate binding|oligo-1,6-glucosidase activity|sucrose alpha-glucosidase activity			ovary(7)|upper_aerodigestive_tract(4)|skin(2)|pancreas(1)	14		Prostate(884;0.00314)|Melanoma(1037;0.0153)|all_neural(597;0.0199)			Acarbose(DB00284)	CATTGGGGACGTAGGCATTTA	0.353										HNSCC(35;0.089)			42	126					0	0	0.003610	0	0	
SLC7A14	57709	broad.mit.edu	37	3	170184883	170184883	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:170184883G>A	uc003fgz.2	-	8	2592	c.2276C>T	c.(2275-2277)GCC>GTC	p.A759V	CLDN11_uc011bpt.1_Intron|uc003fha.1_5'Flank	NM_020949	NP_066000	Q8TBB6	S7A14_HUMAN	solute carrier family 7 (cationic amino acid	759						integral to membrane	amino acid transmembrane transporter activity			ovary(2)|upper_aerodigestive_tract(1)|liver(1)|central_nervous_system(1)	5	all_cancers(22;2.41e-22)|all_epithelial(15;4.2e-27)|all_lung(20;1.17e-16)|Lung NSC(18;4.91e-16)|Ovarian(172;0.000902)|Breast(254;0.137)		Lung(28;6.23e-13)|LUSC - Lung squamous cell carcinoma(14;1.48e-12)			TGCAATCAGGGCCTCTGAGTT	0.443													13	158					0	0	0.003163	0	0	
TNIK	23043	broad.mit.edu	37	3	170805172	170805172	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:170805172G>A	uc003fhh.2	-	24	3190	c.2845C>T	c.(2845-2847)CGC>TGC	p.R949C	TNIK_uc003fhi.2_Missense_Mutation_p.R894C|TNIK_uc003fhj.2_Missense_Mutation_p.R920C|TNIK_uc003fhk.2_Missense_Mutation_p.R941C|TNIK_uc003fhl.2_Missense_Mutation_p.R865C|TNIK_uc003fhm.2_Missense_Mutation_p.R886C|TNIK_uc003fhn.2_Missense_Mutation_p.R912C|TNIK_uc003fho.2_Missense_Mutation_p.R857C|TNIK_uc003fhg.2_Missense_Mutation_p.R127C	NM_015028	NP_055843	Q9UKE5	TNIK_HUMAN	TRAF2 and NCK interacting kinase isoform 1	949	Mediates interaction with NEDD4.				actin cytoskeleton reorganization|activation of JNKK activity|protein autophosphorylation|regulation of dendrite morphogenesis|Wnt receptor signaling pathway	cytoskeleton|nucleus|recycling endosome	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(4)|large_intestine(1)	5	all_cancers(22;2.55e-19)|all_lung(20;2.22e-14)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)			GTTGAGACGCGCCCCAGTCCC	0.577													7	62					0	0	0.001984	0	0	
GHSR	2693	broad.mit.edu	37	3	172166024	172166024	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:172166024G>A	uc003fib.1	-	1	180	c.180C>T	c.(178-180)GGC>GGT	p.G60G	GHSR_uc011bpv.1_Silent_p.G60G	NM_198407	NP_940799	Q92847	GHSR_HUMAN	growth hormone secretagogue receptor isoform 1a	60	Helical; Name=1; (Potential).				actin polymerization or depolymerization|adult feeding behavior|decidualization|growth hormone secretion|hormone-mediated signaling pathway|negative regulation of inflammatory response|negative regulation of interleukin-1 beta production|negative regulation of interleukin-6 biosynthetic process|negative regulation of tumor necrosis factor biosynthetic process|positive regulation of appetite|positive regulation of multicellular organism growth	cell surface|integral to membrane|membrane raft|neuron projection|plasma membrane	growth hormone secretagogue receptor activity|growth hormone-releasing hormone receptor activity			lung(3)|ovary(1)|central_nervous_system(1)	5	Ovarian(172;0.00143)|Breast(254;0.197)		Lung(28;3.93e-15)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)|STAD - Stomach adenocarcinoma(35;0.235)			TGAGCAGGTTGCCAGCGATGC	0.662													6	28					0	0	0.004482	0	0	
ZNF639	51193	broad.mit.edu	37	3	179051265	179051265	+	Silent	SNP	G	A	A	rs17852358		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:179051265G>A	uc003fjq.1	+	6	856	c.513G>A	c.(511-513)CCG>CCA	p.P171P	ZNF639_uc003fjr.1_Silent_p.P171P	NM_016331	NP_057415	Q9UID6	ZN639_HUMAN	zinc finger protein 639	171					initiation of viral infection|negative regulation by host of viral transcription|negative regulation of transcription, DNA-dependent|positive regulation by host of viral transcription|positive regulation of cell growth|positive regulation of transcription, DNA-dependent	nucleus	protein self-association|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding				0	all_cancers(143;7.9e-17)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0923)			ATGAAGAACCGCCAGCTAAAC	0.418													18	61					0	0	0.007413	0	0	
ZNF639	51193	broad.mit.edu	37	3	179052028	179052028	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:179052028T>G	uc003fjq.1	+	6	1619	c.1276T>G	c.(1276-1278)TTA>GTA	p.L426V	ZNF639_uc003fjr.1_Missense_Mutation_p.L426V	NM_016331	NP_057415	Q9UID6	ZN639_HUMAN	zinc finger protein 639	426	Interaction with CTNNA2.				initiation of viral infection|negative regulation by host of viral transcription|negative regulation of transcription, DNA-dependent|positive regulation by host of viral transcription|positive regulation of cell growth|positive regulation of transcription, DNA-dependent	nucleus	protein self-association|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding				0	all_cancers(143;7.9e-17)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0923)			AAATTCACATTTATCTGAAGG	0.313													4	57					0	0	0.009096	0	0	
USP13	8975	broad.mit.edu	37	3	179437789	179437789	+	Silent	SNP	G	A	A	rs148480598	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:179437789G>A	uc003fkh.2	+	7	948	c.867G>A	c.(865-867)GCG>GCA	p.A289A	USP13_uc003fkf.2_Silent_p.A289A	NM_003940	NP_003931	Q92995	UBP13_HUMAN	ubiquitin thiolesterase 13	289					ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(1)	1	all_cancers(143;7.79e-15)|Ovarian(172;0.0338)|Breast(254;0.148)		OV - Ovarian serous cystadenocarcinoma(80;1e-25)|GBM - Glioblastoma multiforme(14;0.0169)			AGCACTTAGCGCATTTTGGAA	0.433													19	69					0	0	0.010504	0	0	
PEX5L	51555	broad.mit.edu	37	3	179519671	179519671	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:179519671G>A	uc003fki.1	-	15	1956	c.1826C>T	c.(1825-1827)GCG>GTG	p.A609V	PEX5L_uc011bqd.1_Missense_Mutation_p.A566V|PEX5L_uc011bqe.1_Missense_Mutation_p.A417V|PEX5L_uc011bqf.1_Missense_Mutation_p.A501V|PEX5L_uc003fkj.1_Missense_Mutation_p.A574V|PEX5L_uc010hxd.1_Missense_Mutation_p.A607V|PEX5L_uc011bqg.1_Missense_Mutation_p.A585V|PEX5L_uc011bqh.1_Missense_Mutation_p.A550V	NM_016559	NP_057643	Q8IYB4	PEX5R_HUMAN	peroxisomal biogenesis factor 5-like	609					protein import into peroxisome matrix|regulation of cAMP-mediated signaling	cytosol|peroxisomal membrane	peroxisome matrix targeting signal-1 binding			ovary(3)|large_intestine(1)	4	all_cancers(143;3.94e-14)|Ovarian(172;0.0338)|Breast(254;0.183)		OV - Ovarian serous cystadenocarcinoma(80;1.75e-26)|GBM - Glioblastoma multiforme(14;0.000518)			AAGATTAGCCGCCTGGAAGAG	0.463													8	181					0	0	0.006214	0	0	
CCDC39	339829	broad.mit.edu	37	3	180334111	180334111	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:180334111C>T	uc010hxe.2	-	19	2742	c.2627G>A	c.(2626-2628)CGT>CAT	p.R876H	CCDC39_uc003fkn.2_RNA|TTC14_uc003fkm.2_Intron	NM_181426	NP_852091	Q9UFE4	CCD39_HUMAN	coiled-coil domain containing 39	876	Ser-rich.				axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium axoneme|cytoplasm|cytoskeleton				ovary(4)	4	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			AGAGCTCTGACGACTGCCTTT	0.383													12	37					0	0	0.001855	0	0	
FXR1	8087	broad.mit.edu	37	3	180688056	180688056	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:180688056C>T	uc003fkq.2	+	15	1535	c.1513C>T	c.(1513-1515)CGG>TGG	p.R505W	FXR1_uc003fkp.2_Missense_Mutation_p.R420W|FXR1_uc003fkr.2_Missense_Mutation_p.R505W|FXR1_uc011bqj.1_Missense_Mutation_p.R419W|FXR1_uc003fks.2_Missense_Mutation_p.R448W|FXR1_uc011bqk.1_Missense_Mutation_p.R456W|FXR1_uc011bql.1_Missense_Mutation_p.R492W	NM_005087	NP_005078	P51114	FXR1_HUMAN	fragile X mental retardation-related protein 1	505	Poly-Arg.				apoptosis|cell differentiation|muscle organ development	nucleolus|polysome				breast(1)	1	all_cancers(143;6.07e-14)|Ovarian(172;0.0212)		Epithelial(37;3.05e-35)|OV - Ovarian serous cystadenocarcinoma(80;2.4e-22)			CCGTCGTAGGCGGTCTCGTAG	0.443													22	75					0	0	0.004656	0	0	
MCF2L2	23101	broad.mit.edu	37	3	182941891	182941891	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:182941891A>C	uc003fli.1	-	19	2293	c.2203T>G	c.(2203-2205)TTT>GTT	p.F735V		NM_015078	NP_055893	Q86YR7	MF2L2_HUMAN	Rho family guanine-nucleotide exchange factor	735	DH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)|large_intestine(2)|breast(1)	5	all_cancers(143;1.26e-12)|Ovarian(172;0.0355)		all cancers(12;3.35e-44)|Epithelial(37;6.48e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			ATTACCCCAAAGTAGGCGCAG	0.408													8	218					0	0	0.004482	0	0	
YEATS2	55689	broad.mit.edu	37	3	183490118	183490118	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:183490118C>T	uc003fly.2	+	16	2168	c.1973C>T	c.(1972-1974)GCT>GTT	p.A658V		NM_018023	NP_060493	Q9ULM3	YETS2_HUMAN	YEATS domain containing 2	658					histone H3 acetylation|negative regulation of transcription from RNA polymerase II promoter	Ada2/Gcn5/Ada3 transcription activator complex	TBP-class protein binding			ovary(3)|large_intestine(1)	4	all_cancers(143;6.55e-10)|Ovarian(172;0.0303)		all cancers(12;2.38e-42)|Epithelial(37;1.9e-36)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			GTTGGGTCTGCTTTACCTTCA	0.537													13	36					0	0	0.003163	0	0	
ABCC5	10057	broad.mit.edu	37	3	183689508	183689508	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:183689508C>T	uc003fmg.2	-	11	1769	c.1604G>A	c.(1603-1605)CGC>CAC	p.R535H	ABCC5_uc011bqt.1_Missense_Mutation_p.R63H|ABCC5_uc010hxl.2_Missense_Mutation_p.R535H	NM_005688	NP_005679	O15440	MRP5_HUMAN	ATP-binding cassette, sub-family C, member 5	535						integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	all_cancers(143;1.85e-10)|Ovarian(172;0.0303)		Epithelial(37;1.74e-35)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			ATGCTCAGTGCGCTGCAGCTG	0.582													9	22					0	0	0.008291	0	0	
AP2M1	1173	broad.mit.edu	37	3	183900553	183900553	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:183900553G>A	uc011bqx.1	+	11	1227	c.1070G>A	c.(1069-1071)CGC>CAC	p.R357H	AP2M1_uc003fmw.2_Missense_Mutation_p.R355H|AP2M1_uc003fmx.2_Missense_Mutation_p.R285H|AP2M1_uc003fmy.2_Missense_Mutation_p.R355H|AP2M1_uc011bqy.1_Missense_Mutation_p.R227H|AP2M1_uc011bqz.1_Missense_Mutation_p.R173H	NM_004068	NP_004059	Q96CW1	AP2M1_HUMAN	adaptor-related protein complex 2, mu 1 subunit	357	MHD.				axon guidance|cellular membrane organization|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|synaptic transmission|vesicle-mediated transport|viral reproduction	clathrin adaptor complex|clathrin coat of coated pit|cytosol|endocytic vesicle membrane|peroxisomal membrane	lipid binding|protein binding|transporter activity				0	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.92e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			AGGATCAAGCGCATGGCAGGC	0.542													6	59					0	0	0.003080	0	0	
ABCF3	55324	broad.mit.edu	37	3	183910955	183910955	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:183910955C>T	uc003fmz.2	+	19	1949	c.1816C>T	c.(1816-1818)CGT>TGT	p.R606C	ABCF3_uc003fna.2_Missense_Mutation_p.R600C|ABCF3_uc003fnb.2_Missense_Mutation_p.R287C	NM_018358	NP_060828	Q9NUQ8	ABCF3_HUMAN	ATP-binding cassette, sub-family F (GCN20),	606	ABC transporter 2.						ATP binding|ATPase activity			ovary(3)|lung(1)	4	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.35e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			ACTGGCCATGCGTCCTCTTGC	0.607													15	27					0	0	0.002450	0	0	
CAMK2N2	94032	broad.mit.edu	37	3	183978984	183978984	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:183978984C>T	uc003fnj.1	-	1	268	c.90G>A	c.(88-90)CTG>CTA	p.L30L	ECE2_uc003fni.3_Intron	NM_033259	NP_150284	Q96S95	CK2N2_HUMAN	CaM-KII inhibitory protein	30						cytosol|nucleus	protein kinase inhibitor activity				0	all_cancers(143;1.09e-10)|Ovarian(172;0.0339)		Epithelial(37;2.51e-33)|OV - Ovarian serous cystadenocarcinoma(80;5.69e-22)			TGGTGTCCTGCAGGCGGCAGC	0.632													4	10					0	0	0.000602	0	0	
ECE2	9718	broad.mit.edu	37	3	184002835	184002835	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:184002835G>A	uc003fni.3	+	9	1482	c.1444G>A	c.(1444-1446)GTG>ATG	p.V482M	ECE2_uc011brh.1_Missense_Mutation_p.V335M|ECE2_uc003fnl.3_Missense_Mutation_p.V410M|ECE2_uc003fnm.3_Missense_Mutation_p.V364M|ECE2_uc003fnk.3_Missense_Mutation_p.V335M|ECE2_uc011bri.1_Missense_Mutation_p.V397M|ECE2_uc010hxv.2_Missense_Mutation_p.V126M	NM_014693	NP_055508	O60344	ECE2_HUMAN	endothelin converting enzyme 2 isoform A	482	Lumenal (Potential).|Endothelin-converting enzyme 2 region.				brain development|cardioblast differentiation|cell-cell signaling|peptide hormone processing	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	metal ion binding|metalloendopeptidase activity|methyltransferase activity			ovary(2)|skin(2)	4	all_cancers(143;1.39e-10)|Ovarian(172;0.0339)		Epithelial(37;8.28e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GCCTGTGGTGGTGTATGGGAT	0.542											OREG0015945	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	69					0	0	0.003080	0	0	
ECE2	9718	broad.mit.edu	37	3	184008830	184008830	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:184008830C>T	uc003fni.3	+	17	2229	c.2191C>T	c.(2191-2193)CGC>TGC	p.R731C	ECE2_uc011brh.1_Missense_Mutation_p.R584C|ECE2_uc003fnl.3_Missense_Mutation_p.R659C|ECE2_uc003fnm.3_Missense_Mutation_p.R613C|ECE2_uc003fnk.3_Missense_Mutation_p.R584C|ECE2_uc011bri.1_Missense_Mutation_p.R646C|ECE2_uc010hxv.2_3'UTR	NM_014693	NP_055508	O60344	ECE2_HUMAN	endothelin converting enzyme 2 isoform A	731	Lumenal (Potential).|Endothelin-converting enzyme 2 region.				brain development|cardioblast differentiation|cell-cell signaling|peptide hormone processing	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	metal ion binding|metalloendopeptidase activity|methyltransferase activity			ovary(2)|skin(2)	4	all_cancers(143;1.39e-10)|Ovarian(172;0.0339)		Epithelial(37;8.28e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			CTCCTCAGGGCGCGAGTATGA	0.607													5	80					0	0	0.001168	0	0	
PSMD2	5708	broad.mit.edu	37	3	184025435	184025435	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:184025435G>A	uc003fnn.1	+	18	2270	c.2237G>A	c.(2236-2238)CGC>CAC	p.R746H	PSMD2_uc011brj.1_Missense_Mutation_p.R587H|PSMD2_uc011brk.1_Missense_Mutation_p.R616H	NM_002808	NP_002799	Q13200	PSMD2_HUMAN	proteasome 26S non-ATPase subunit 2	746	PC 7.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	enzyme regulator activity|protein binding				0	all_cancers(143;1.54e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Bortezomib(DB00188)	GCAATGCTGCGCCAGTTAGCT	0.483													17	47					0	0	0.007413	0	0	
EIF4G1	1981	broad.mit.edu	37	3	184039307	184039307	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:184039307G>A	uc003fnp.2	+	10	1133	c.935G>A	c.(934-936)CGC>CAC	p.R312H	EIF4G1_uc003fno.1_Missense_Mutation_p.R253H|EIF4G1_uc010hxw.1_Missense_Mutation_p.R148H|EIF4G1_uc003fnt.2_Missense_Mutation_p.R23H|EIF4G1_uc003fnq.2_Missense_Mutation_p.R225H|EIF4G1_uc003fnr.2_Missense_Mutation_p.R148H|EIF4G1_uc010hxx.2_Missense_Mutation_p.R319H|EIF4G1_uc003fns.2_Missense_Mutation_p.R272H|EIF4G1_uc010hxy.2_Missense_Mutation_p.R319H|EIF4G1_uc003fnv.3_Missense_Mutation_p.R312H|EIF4G1_uc003fnu.3_Missense_Mutation_p.R312H|EIF4G1_uc003fnw.2_Missense_Mutation_p.R319H|EIF4G1_uc003fnx.2_Missense_Mutation_p.R116H|EIF4G1_uc003fny.3_Missense_Mutation_p.R116H	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	312					insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GAGCCATATCGCCTCTCTCCA	0.493													20	40					0	0	0.003330	0	0	
EPHB3	2049	broad.mit.edu	37	3	184290699	184290699	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:184290699C>T	uc003foz.2	+	3	1028	c.591C>T	c.(589-591)GGC>GGT	p.G197G		NM_004443	NP_004434	P54753	EPHB3_HUMAN	ephrin receptor EphB3 precursor	197	Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(5)|breast(2)|upper_aerodigestive_tract(1)|stomach(1)|skin(1)|ovary(1)	11	all_cancers(143;1.89e-10)|Ovarian(172;0.0339)		Epithelial(37;1.27e-34)|OV - Ovarian serous cystadenocarcinoma(80;3.8e-22)			AGGACCAGGGCGCCTGCATGT	0.637													16	12					0	0	0.006122	0	0	
EPHB3	2049	broad.mit.edu	37	3	184297350	184297350	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:184297350C>T	uc003foz.2	+	10	2324	c.1887C>T	c.(1885-1887)GAC>GAT	p.D629D		NM_004443	NP_004434	P54753	EPHB3_HUMAN	ephrin receptor EphB3 precursor	629	Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(5)|breast(2)|upper_aerodigestive_tract(1)|stomach(1)|skin(1)|ovary(1)	11	all_cancers(143;1.89e-10)|Ovarian(172;0.0339)		Epithelial(37;1.27e-34)|OV - Ovarian serous cystadenocarcinoma(80;3.8e-22)			AGGAGATCGACGTGTCCTGCG	0.547													33	39					0	0	0.003755	0	0	
VPS8	23355	broad.mit.edu	37	3	184714256	184714256	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:184714256G>A	uc003fpb.1	+	43	3968	c.3797G>A	c.(3796-3798)CGC>CAC	p.R1266H	VPS8_uc010hyd.1_Missense_Mutation_p.R1176H|VPS8_uc010hye.1_Missense_Mutation_p.R695H	NM_015303	NP_056118	Q8N3P4	VPS8_HUMAN	vacuolar protein sorting 8 homolog isoform b	1268	RING-type; atypical.						zinc ion binding			ovary(1)	1	all_cancers(143;2.51e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.02e-33)|OV - Ovarian serous cystadenocarcinoma(80;4.81e-22)			TACAAGAGACGCCAAGAAATG	0.418													19	53					0	0	0.005443	0	0	
SENP2	59343	broad.mit.edu	37	3	185347619	185347619	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:185347619A>C	uc003fpn.2	+	17	1928	c.1757A>C	c.(1756-1758)CAG>CCG	p.Q586P	SENP2_uc011brv.1_Missense_Mutation_p.Q576P|SENP2_uc011brw.1_Missense_Mutation_p.Q399P	NM_021627	NP_067640	Q9HC62	SENP2_HUMAN	SUMO1/sentrin/SMT3 specific protease 2	586					mRNA transport|protein desumoylation|protein transport|proteolysis|regulation of Wnt receptor signaling pathway|transmembrane transport|Wnt receptor signaling pathway	cytoplasm|nuclear membrane|nuclear pore	protein binding|SUMO-specific protease activity				0	all_cancers(143;1.28e-10)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(80;1.31e-21)			ATCCTTCATCAGCAGTTGCTG	0.468													4	49					0	0	0.001168	0	0	
TRA2B	6434	broad.mit.edu	37	3	185643269	185643269	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:185643269G>A	uc003fpv.2	-	3	592	c.316C>T	c.(316-318)CGT>TGT	p.R106C	TRA2B_uc003fpt.2_5'Flank|TRA2B_uc003fpu.2_RNA|TRA2B_uc010hym.2_Missense_Mutation_p.R6C|TRA2B_uc003fpw.2_Missense_Mutation_p.R106C	NM_004593	NP_004584	P62995	TRA2B_HUMAN	splicing factor, arginine/serine-rich 10	106	Arg/Ser-rich (RS1 domain).				nuclear mRNA splicing, via spliceosome	nucleus	nucleotide binding|protein binding|RNA binding			ovary(2)	2						CCAACATGACGCCTGCGAGTA	0.463													6	45					0	0	0.006214	0	0	
TBCCD1	55171	broad.mit.edu	37	3	186281967	186281967	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:186281967C>T	uc003fqg.2	-	2	281	c.152G>A	c.(151-153)CGC>CAC	p.R51H	TBCCD1_uc011bry.1_Missense_Mutation_p.R51H|TBCCD1_uc003fqh.2_Intron	NM_018138	NP_060608	Q9NVR7	TBCC1_HUMAN	TBCC domain containing 1	51					cell morphogenesis|maintenance of centrosome location|maintenance of Golgi location|regulation of cell migration|regulation of cell shape	spindle pole centrosome	binding			large_intestine(1)|ovary(1)	2	all_cancers(143;3.75e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;4.3e-21)	GBM - Glioblastoma multiforme(93;0.0474)		CCAGTAGAGGCGCGGGTAAGC	0.517													8	49					0	0	0.003080	0	0	
HRG	3273	broad.mit.edu	37	3	186395126	186395126	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:186395126T>C	uc003fqq.2	+	7	1055	c.1032T>C	c.(1030-1032)AAT>AAC	p.N344N		NM_000412	NP_000403	P04196	HRG_HUMAN	histidine-rich glycoprotein precursor	344					fibrinolysis|platelet activation|platelet degranulation	extracellular region|plasma membrane|platelet alpha granule lumen	cysteine-type endopeptidase inhibitor activity|heparin binding			ovary(1)|central_nervous_system(1)	2	all_cancers(143;6.64e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.73e-20)	GBM - Glioblastoma multiforme(93;0.0683)		CTCATAATAATAATTCCAGTG	0.269													3	45					0	0	0.004672	0	0	
ST6GAL1	6480	broad.mit.edu	37	3	186761061	186761061	+	Silent	SNP	G	A	A	rs141692826		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:186761061G>A	uc003frb.2	+	4	1002	c.570G>A	c.(568-570)GCG>GCA	p.A190A	ST6GAL1_uc003frc.2_Intron|ST6GAL1_uc003frd.2_Silent_p.A190A	NM_173216	NP_775323	P15907	SIAT1_HUMAN	ST6 beta-galactosamide	190	Lumenal (Potential).				humoral immune response|post-translational protein modification|protein N-linked glycosylation via asparagine	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,6-sialyltransferase activity			central_nervous_system(1)	1	all_cancers(143;2.33e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;8.53e-19)	GBM - Glioblastoma multiforme(93;0.0939)		TGTCGTCAGCGGGATCTCTGA	0.522													6	107					0	0	0.001168	0	0	
BCL6	604	broad.mit.edu	37	3	187451444	187451444	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:187451444C>T	uc003frp.3	-	3	495	c.38G>A	c.(37-39)CGC>CAC	p.R13H	BCL6_uc011bsf.1_Missense_Mutation_p.R13H|BCL6_uc010hza.2_5'UTR|BCL6_uc003frq.1_Missense_Mutation_p.R13H	NM_001130845	NP_001124317	P41182	BCL6_HUMAN	B-cell lymphoma 6 protein isoform 1	13					negative regulation of B cell apoptosis|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|protein import into nucleus, translocation|regulation of germinal center formation|response to DNA damage stimulus	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|lung(2)|central_nervous_system(1)	5	all_cancers(143;9.45e-12)|Ovarian(172;0.0418)		OV - Ovarian serous cystadenocarcinoma(80;1.76e-18)	GBM - Glioblastoma multiforme(93;0.0141)		ACTGGCATGGCGGGTGAACTG	0.488			T|Mis	IG loci|ZNFN1A1|LCP1|PIM1|TFRC|MHC2TA|NACA|HSPCB|HSPCA|HIST1H4I|IL21R| POU2AF1|ARHH|EIF4A2|SFRS3	NHL|CLL								5	93					0	0	0.001168	0	0	
CLDN1	9076	broad.mit.edu	37	3	190030679	190030679	+	Missense_Mutation	SNP	C	T	T	rs140846629	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:190030679C>T	uc003fsh.2	-	2	590	c.370G>A	c.(370-372)GCG>ACG	p.A124T		NM_021101	NP_066924	O95832	CLD1_HUMAN	claudin 1	124	Helical; (Potential).				calcium-independent cell-cell adhesion|interspecies interaction between organisms	integral to plasma membrane|tight junction	identical protein binding|structural molecule activity			lung(1)	1	all_cancers(143;2.95e-10)|Ovarian(172;0.0512)		Lung(62;2.23e-05)|LUSC - Lung squamous cell carcinoma(58;3.15e-05)	GBM - Glioblastoma multiforme(93;0.015)		AGAAATATCGCACCCCCAATG	0.458													38	133					0	0	0.005524	0	0	
CCDC50	152137	broad.mit.edu	37	3	191097951	191097951	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:191097951T>C	uc003fsw.2	+	6	1042	c.452T>C	c.(451-453)ATG>ACG	p.M151T	CCDC50_uc003fsv.2_Missense_Mutation_p.M327T	NM_174908	NP_777568	Q8IVM0	CCD50_HUMAN	Ymer protein short isoform	151						cytoplasm	protein binding				0	all_cancers(143;8.88e-09)|Ovarian(172;0.103)|Breast(254;0.221)		LUSC - Lung squamous cell carcinoma(58;2.42e-06)|Lung(62;2.86e-06)	GBM - Glioblastoma multiforme(46;0.000136)		TTTAAAGGAATGAAGCCAAGA	0.343													17	27					0	0	0.006122	0	0	
C3orf59	151963	broad.mit.edu	37	3	192516776	192516776	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:192516776G>A	uc011bsp.1	-	2	1196	c.875C>T	c.(874-876)GCC>GTC	p.A292V		NM_178496	NP_848591	Q8IYB1	M21D2_HUMAN	hypothetical protein LOC151963	292											0	all_cancers(143;1.56e-08)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.8e-18)|LUSC - Lung squamous cell carcinoma(58;8.04e-06)|Lung(62;8.62e-06)	GBM - Glioblastoma multiforme(46;3.86e-05)		CTCGCTCCTGGCAAAGGACAG	0.527													3	17					0	0	0.009096	0	0	
ATP13A4	84239	broad.mit.edu	37	3	193171906	193171906	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:193171906C>T	uc003ftd.2	-	17	2119	c.2011G>A	c.(2011-2013)GCT>ACT	p.A671T	ATP13A4_uc003fte.1_Missense_Mutation_p.A671T|ATP13A4_uc011bsr.1_Missense_Mutation_p.A142T|ATP13A4_uc010hzi.2_RNA	NM_032279	NP_115655	Q4VNC1	AT134_HUMAN	ATPase type 13A4	671	Extracellular (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(2)	2	all_cancers(143;1.76e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;2.72e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;0.000109)		AAGGTAGTAGCGTGATGGTCA	0.438													11	45					0	0	0.002450	0	0	
ATP13A4	84239	broad.mit.edu	37	3	193180607	193180607	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:193180607G>A	uc003ftd.2	-	13	1575	c.1467C>T	c.(1465-1467)GGC>GGT	p.G489G	ATP13A4_uc003fte.1_Silent_p.G489G|ATP13A4_uc011bsr.1_5'UTR|ATP13A4_uc010hzi.2_RNA|ATP13A4_uc003ftf.3_Silent_p.G195G	NM_032279	NP_115655	Q4VNC1	AT134_HUMAN	ATPase type 13A4	489	Extracellular (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(2)	2	all_cancers(143;1.76e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;2.72e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;0.000109)		TTGTTAAGGTGCCTGTCTAAA	0.338													13	38					0	0	0.001368	0	0	
LRRC15	131578	broad.mit.edu	37	3	194080553	194080553	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:194080553C>T	uc003ftu.2	-	2	1306	c.1220G>A	c.(1219-1221)GGC>GAC	p.G407D	LRRC15_uc003ftt.2_Missense_Mutation_p.G413D	NM_130830	NP_570843	Q8TF66	LRC15_HUMAN	leucine rich repeat containing 15 isoform b	407	LRR 15.|Extracellular (Potential).					integral to membrane				ovary(3)	3	all_cancers(143;5.31e-09)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.2e-17)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.94e-05)		ATCGAAGATGCCGAGGGGCAA	0.572													11	25					0	0	0.001855	0	0	
ATP13A3	79572	broad.mit.edu	37	3	194158063	194158063	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:194158063G>A	uc003fty.3	-	18	2378	c.1976C>T	c.(1975-1977)GCC>GTC	p.A659V	ATP13A3_uc003ftz.1_Missense_Mutation_p.A365V	NM_024524	NP_078800	Q9H7F0	AT133_HUMAN	ATPase type 13A3	659					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(1)	1	all_cancers(143;6.01e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;3.83e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;5.98e-05)		ACAGAGACCGGCAATGGCCTC	0.438													25	77					0	0	0.005443	0	0	
MUC4	4585	broad.mit.edu	37	3	195505851	195505851	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:195505851T>C	uc011bto.1	-	3	12676	c.12216A>G	c.(12214-12216)TCA>TCG	p.S4072S	MUC4_uc003fva.2_5'Flank|MUC4_uc003fvb.2_5'Flank|MUC4_uc003fvc.2_5'Flank|MUC4_uc003fvd.2_5'Flank|MUC4_uc003fve.2_5'Flank|MUC4_uc010hzr.2_5'Flank|MUC4_uc011btf.1_Intron|MUC4_uc011btg.1_Intron|MUC4_uc011bth.1_Intron|MUC4_uc011bti.1_Intron|MUC4_uc011btj.1_Intron|MUC4_uc011btk.1_Intron|MUC4_uc011btl.1_Intron|MUC4_uc011btm.1_Intron|MUC4_uc011btn.1_Intron|MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Intron	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	963	Ser-rich.				cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		CTGTGGATGCTGAGGAAGTGT	0.592													4	18					0	0	0.001984	0	0	
MUC4	4585	broad.mit.edu	37	3	195508234	195508234	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:195508234G>A	uc011bto.1	-	3	10293	c.9833C>T	c.(9832-9834)ACC>ATC	p.T3278I	MUC4_uc003fva.2_5'Flank|MUC4_uc003fvb.2_5'Flank|MUC4_uc003fvc.2_5'Flank|MUC4_uc003fvd.2_5'Flank|MUC4_uc003fve.2_5'Flank|MUC4_uc010hzr.2_5'Flank|MUC4_uc011btf.1_5'Flank|MUC4_uc011btg.1_5'Flank|MUC4_uc011bth.1_5'Flank|MUC4_uc011bti.1_5'Flank|MUC4_uc011btj.1_5'Flank|MUC4_uc011btk.1_5'Flank|MUC4_uc011btl.1_5'Flank|MUC4_uc011btm.1_5'Flank|MUC4_uc011btn.1_5'Flank|MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Intron	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		AAGAGGCATGGTGTCACCTGT	0.592													4	20					0	0	0.009096	0	0	
MUC4	4585	broad.mit.edu	37	3	195508379	195508379	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:195508379C>T	uc011bto.1	-	3	10148	c.9688G>A	c.(9688-9690)GCC>ACC	p.A3230T	MUC4_uc003fva.2_5'Flank|MUC4_uc003fvb.2_5'Flank|MUC4_uc003fvc.2_5'Flank|MUC4_uc003fvd.2_5'Flank|MUC4_uc003fve.2_5'Flank|MUC4_uc010hzr.2_5'Flank|MUC4_uc011btf.1_5'Flank|MUC4_uc011btg.1_5'Flank|MUC4_uc011bth.1_5'Flank|MUC4_uc011bti.1_5'Flank|MUC4_uc011btj.1_5'Flank|MUC4_uc011btk.1_5'Flank|MUC4_uc011btl.1_5'Flank|MUC4_uc011btm.1_5'Flank|MUC4_uc011btn.1_5'Flank|MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Intron	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		AGAGGGGTGGCGTGACCTGTG	0.602													5	25					0	0	0.000602	0	0	
TM4SF19	116211	broad.mit.edu	37	3	196054415	196054415	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:196054415C>T	uc003fwl.1	-	2	172	c.47G>A	c.(46-48)CGT>CAT	p.R16H	TM4SF19_uc003fwj.2_RNA|TM4SF19_uc010iad.1_Missense_Mutation_p.R16H|TM4SF19_uc011btv.1_Missense_Mutation_p.R16H	NM_138461	NP_612470	Q96DZ7	T4S19_HUMAN	transmembrane 4 L six family member 19	16	Cytoplasmic (Potential).					integral to membrane					0	all_cancers(143;1.19e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;3.94e-24)|all cancers(36;4.34e-22)|OV - Ovarian serous cystadenocarcinoma(49;8.53e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00314)		TCCCAGGATACGGGAGCAAGT	0.607													16	47					0	0	0.006122	0	0	
LRRC33	375387	broad.mit.edu	37	3	196388524	196388524	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:196388524C>T	uc003fwv.2	+	3	2114	c.2010C>T	c.(2008-2010)ATC>ATT	p.I670I		NM_198565	NP_940967	Q86YC3	LRC33_HUMAN	leucine rich repeat containing 33 precursor	670	Helical; (Potential).					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_cancers(143;8.88e-09)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.9e-23)|all cancers(36;1.76e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.5e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00326)		GCACTGTCATCGTCCTCACTT	0.597													26	71					0	0	0.002445	0	0	
PIGZ	80235	broad.mit.edu	37	3	196674848	196674848	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:196674848G>A	uc003fxh.2	-	3	1067	c.920C>T	c.(919-921)GCG>GTG	p.A307V		NM_025163	NP_079439	Q86VD9	PIGZ_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	307					GPI anchor biosynthetic process	integral to membrane|intrinsic to endoplasmic reticulum membrane	alpha-1,2-mannosyltransferase activity			ovary(3)	3	all_cancers(143;1.05e-08)|Ovarian(172;0.0634)|Breast(254;0.0838)		Epithelial(36;4.29e-24)|all cancers(36;2.79e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.03e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00603)		GCCATGTCTCGCCAGGTTTTG	0.612													4	59					0	0	0.000602	0	0	
MFI2	4241	broad.mit.edu	37	3	196736624	196736624	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:196736624C>T	uc003fxk.3	-	11	1503	c.1390G>A	c.(1390-1392)GCC>ACC	p.A464T		NM_005929	NP_005920	P08582	TRFM_HUMAN	melanoma-associated antigen p97 isoform 1	464	Transferrin-like 2.				cellular iron ion homeostasis|iron ion transport	anchored to membrane|extracellular region|integral to plasma membrane	ferric iron binding|protein binding				0	all_cancers(143;3.95e-09)|Ovarian(172;0.0634)|Breast(254;0.0838)		Epithelial(36;4.55e-24)|all cancers(36;2.87e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.76e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00536)		AAGGTGAAGGCGTGGGAGCTG	0.647													6	17					0	0	0.004482	0	0	
KIAA0226	9711	broad.mit.edu	37	3	197402018	197402018	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:197402018C>T	uc003fyc.2	-	20	2973	c.2790G>A	c.(2788-2790)CCG>CCA	p.P930P	KIAA0226_uc003fyd.3_Silent_p.P885P|MIR922_hsa-mir-922|MI0005714_5'Flank	NM_014687	NP_055502	Q92622	RUBIC_HUMAN	hypothetical protein LOC9711 isoform 2.	930	Cys-rich.				autophagy|endocytosis|negative regulation of autophagy|negative regulation of endocytosis	early endosome|late endosome|lysosome	protein binding				0	all_cancers(143;8.26e-10)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;2.19e-23)|all cancers(36;1.39e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.21e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(93;0.0446)		GCTCGCAGCGCGGACAGCTTC	0.587													6	35					0	0	0.006214	0	0	
LRCH3	84859	broad.mit.edu	37	3	197559147	197559147	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:197559147A>G	uc011bul.1	+	8	1066	c.1061A>G	c.(1060-1062)TAC>TGC	p.Y354C	LRCH3_uc003fyj.1_Missense_Mutation_p.Y354C|LRCH3_uc011bum.1_Missense_Mutation_p.Y354C|LRCH3_uc011bun.1_Missense_Mutation_p.Y228C|LRCH3_uc003fyk.2_5'UTR	NM_032773	NP_116162	Q96II8	LRCH3_HUMAN	leucine-rich repeats and calponin homology (CH)	354						extracellular region				ovary(1)	1	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;4.82e-24)|all cancers(36;3.61e-22)|OV - Ovarian serous cystadenocarcinoma(49;7.08e-19)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.119)		GAAAGCCAGTACCAAGAGAAC	0.398													8	81					0	0	0.000978	0	0	
IQCG	84223	broad.mit.edu	37	3	197618326	197618326	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:197618326G>A	uc003fyo.2	-	10	1334	c.1188C>T	c.(1186-1188)AGC>AGT	p.S396S	IQCG_uc003fyn.2_Silent_p.S298S|IQCG_uc003fyp.2_Silent_p.S396S|IQCG_uc003fym.2_Silent_p.S97S	NM_001134435	NP_001127907	Q9H095	IQCG_HUMAN	IQ motif containing G	396	IQ.										0	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;7.19e-24)|all cancers(36;3.34e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.149)		CCTTTATAACGCTCTTTAATT	0.378													27	59					0	0	0.006320	0	0	
IQCG	84223	broad.mit.edu	37	3	197618384	197618384	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:197618384C>T	uc003fyo.2	-	10	1276	c.1130G>A	c.(1129-1131)CGT>CAT	p.R377H	IQCG_uc003fyn.2_Missense_Mutation_p.R279H|IQCG_uc003fyp.2_Missense_Mutation_p.R377H|IQCG_uc003fym.2_Missense_Mutation_p.R78H	NM_001134435	NP_001127907	Q9H095	IQCG_HUMAN	IQ motif containing G	377											0	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;7.19e-24)|all cancers(36;3.34e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.149)		CTTTTCTATACGATCTTCAAT	0.398													7	111					0	0	0.003080	0	0	
ZNF595	152687	broad.mit.edu	37	4	86474	86474	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:86474C>A	uc003fzv.1	+	6	1236	c.1080C>A	c.(1078-1080)AGC>AGA	p.S360R	ZNF595_uc003fzu.1_Intron|ZNF718_uc003fzt.3_Intron|ZNF595_uc011bus.1_Missense_Mutation_p.S128R|ZNF595_uc011but.1_Missense_Mutation_p.S128R	NM_182524	NP_872330	Q7Z3I0	Q7Z3I0_HUMAN	zinc finger protein 595	360					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding				0		all_cancers(4;0.0738)|all_epithelial(65;0.139)		Lung(54;0.0654)|Epithelial(2;0.0921)|all cancers(2;0.146)|LUSC - Lung squamous cell carcinoma(95;0.173)		TACACAGGAGCATTCATTCTG	0.343													35	91					4.14481e-20	4.53955e-20	0.006230	1	0	
ZNF721	170960	broad.mit.edu	37	4	436305	436306	+	Missense_Mutation	DNP	CA	TG	TG			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:436305_436306CA>TG	uc003gag.2	-	3	2641_2642	c.1950_1951TG>CA	c.(1948-1953)TTTGCC>TTCACC	p.A651T	ABCA11P_uc003gac.2_Intron|ABCA11P_uc003gad.2_Intron|ABCA11P_uc011buv.1_Intron|ABCA11P_uc003gae.2_Intron|ABCA11P_uc010ibd.1_Intron|ZNF721_uc003gaf.3_Missense_Mutation_p.A683T|ZNF721_uc010ibe.2_Missense_Mutation_p.A639T	NM_133474	NP_597731	D9N162	D9N162_HUMAN	zinc finger protein 721	651						intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						GTTGATGGGGCAAAGGCTTTGC	0.436													18	138					0	0	0.004672	0	0	
ZNF721	170960	broad.mit.edu	37	4	436378	436378	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:436378C>T	uc003gag.2	-	3	2569	c.1878G>A	c.(1876-1878)ACG>ACA	p.T626T	ABCA11P_uc003gac.2_Intron|ABCA11P_uc003gad.2_Intron|ABCA11P_uc011buv.1_Intron|ABCA11P_uc003gae.2_Intron|ABCA11P_uc010ibd.1_Intron|ZNF721_uc003gaf.3_Silent_p.T658T|ZNF721_uc010ibe.2_Silent_p.T614T	NM_133474	NP_597731	D9N162	D9N162_HUMAN	zinc finger protein 721	626						intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						GATTCAGGTCCGTGTACCATA	0.418													5	221					0	0	0.001984	0	0	
PIGG	54872	broad.mit.edu	37	4	517475	517475	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:517475G>A	uc003gak.3	+	9	1978	c.1842G>A	c.(1840-1842)GGG>GGA	p.G614G	PIGG_uc003gaj.3_Silent_p.G606G|PIGG_uc011bux.1_RNA|PIGG_uc010ibf.2_Silent_p.G481G|PIGG_uc003gal.3_Silent_p.G525G	NM_001127178	NP_001120650	Q5H8A4	PIGG_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	614					C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	CP2 mannose-ethanolamine phosphotransferase activity			central_nervous_system(2)|ovary(1)|skin(1)	4						TGGAACAAGGGCATGACGGGG	0.587													18	38					0	0	0.010504	0	0	
GAK	2580	broad.mit.edu	37	4	871523	871523	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:871523G>A	uc003gbm.3	-	16	1935	c.1736C>T	c.(1735-1737)GCC>GTC	p.A579V	GAK_uc003gbn.3_Missense_Mutation_p.A500V|GAK_uc010ibk.1_Missense_Mutation_p.A473V|GAK_uc003gbl.3_Missense_Mutation_p.A443V	NM_005255	NP_005246	O14976	GAK_HUMAN	cyclin G associated kinase	579	C2 tensin-type.				cell cycle	focal adhesion|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|heat shock protein binding|protein serine/threonine kinase activity			lung(2)|central_nervous_system(1)|skin(1)	4				Colorectal(103;0.219)		CATGACCACGGCCCTCACCAG	0.652													13	18					0	0	0.002450	0	0	
CTBP1	1487	broad.mit.edu	37	4	1209971	1209971	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:1209971C>T	uc003gcv.1	-	5	735	c.570G>A	c.(568-570)GCG>GCA	p.A190A	uc003gcs.1_RNA|CTBP1_uc003gct.1_Silent_p.A171A|CTBP1_uc003gcu.1_Silent_p.A179A|CTBP1_uc003gcw.2_5'Flank	NM_001328	NP_001319	Q13363	CTBP1_HUMAN	C-terminal binding protein 1 isoform 1	190					interspecies interaction between organisms|negative regulation of cell proliferation|negative regulation of histone H4 acetylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of histone deacetylation|protein phosphorylation|regulation of cell cycle|regulation of transcription by chromatin organization|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|viral genome replication|white fat cell differentiation	cytoplasm|transcriptional repressor complex	NAD binding|oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor|protein C-terminus binding|protein domain specific binding|transcription factor binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(23;0.00818)	Colorectal(103;0.2)		TGGCCCGCAGCGCCACTGCCT	0.682													3	8					0	0	0.001168	0	0	
MAEA	10296	broad.mit.edu	37	4	1326598	1326598	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:1326598G>A	uc003gda.2	+	6	740	c.710G>A	c.(709-711)CGC>CAC	p.R237H	MAEA_uc003gdb.2_Missense_Mutation_p.R196H|MAEA_uc011bvb.1_Missense_Mutation_p.R169H|MAEA_uc003gdc.2_Silent_p.A170A|MAEA_uc003gdd.2_RNA|MAEA_uc011bvc.1_Missense_Mutation_p.R236H|MAEA_uc011bvd.1_Missense_Mutation_p.R189H|MAEA_uc010ibt.2_Intron|MAEA_uc010ibu.2_RNA	NM_001017405	NP_001017405	Q7L5Y9	MAEA_HUMAN	macrophage erythroblast attacher isoform 1	237					cell adhesion|cell cycle|cell division|erythrocyte maturation|negative regulation of myeloid cell apoptosis|regulation of mitotic cell cycle	actomyosin contractile ring|integral to plasma membrane|membrane fraction|nuclear matrix|spindle	actin binding			ovary(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(23;0.0201)			GACGAGGTGCGCCAGGCCATG	0.547													5	14					0	0	0.001168	0	0	
KIAA1530	57654	broad.mit.edu	37	4	1347064	1347064	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:1347064C>T	uc003gde.3	+	5	1244	c.797C>T	c.(796-798)GCG>GTG	p.A266V		NM_020894	NP_065945	Q2YD98	K1530_HUMAN	hypothetical protein LOC57654	266											0			OV - Ovarian serous cystadenocarcinoma(23;0.0138)			CACCCCAGAGCGGGCGGCGGG	0.716													5	6					0	0	0.000602	0	0	
CRIPAK	285464	broad.mit.edu	37	4	1389402	1389402	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:1389402C>T	uc003gdf.2	+	1	4063	c.1103C>T	c.(1102-1104)GCC>GTC	p.A368V		NM_175918	NP_787114	Q8N1N5	CRPAK_HUMAN	cysteine-rich PAK1 inhibitor	368	Interaction with PAK1.				ER-nucleus signaling pathway|negative regulation of protein kinase activity|regulation of cytoskeleton organization|response to estrogen stimulus	endoplasmic reticulum|nucleus|plasma membrane	protein binding				0			OV - Ovarian serous cystadenocarcinoma(23;0.0106)			CACACACGTGCCCATGTGGAG	0.657													26	101					0	0	0.005524	0	0	
TNIP2	79155	broad.mit.edu	37	4	2746482	2746482	+	Missense_Mutation	SNP	G	A	A	rs150823075		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:2746482G>A	uc003gfg.2	-	4	935	c.848C>T	c.(847-849)GCG>GTG	p.A283V	TNIP2_uc003gff.2_Missense_Mutation_p.A176V|TNIP2_uc003gfh.2_Intron	NM_024309	NP_077285	Q8NFZ5	TNIP2_HUMAN	A20-binding inhibitor of NF-kappaB activation 2	283	Potential.					cytosol	protein binding			central_nervous_system(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		CCTGGAGGCCGCCAGCTCCTG	0.607													16	26					0	0	0.004007	0	0	
MFSD10	10227	broad.mit.edu	37	4	2933648	2933648	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:2933648C>T	uc003gfw.2	-	7	1132	c.818G>A	c.(817-819)CGC>CAC	p.R273H	MFSD10_uc003gfv.2_5'Flank|MFSD10_uc003gfx.2_Missense_Mutation_p.R97H|MFSD10_uc003gfz.2_Missense_Mutation_p.R273H|MFSD10_uc003gfy.2_RNA|MFSD10_uc003gga.2_Missense_Mutation_p.R273H|MFSD10_uc003ggb.1_Missense_Mutation_p.R273H|MFSD10_uc003ggc.2_Missense_Mutation_p.R273H|C4orf10_uc003ggd.1_5'Flank|C4orf10_uc003gge.1_5'Flank	NM_001120	NP_001111	Q14728	MFS10_HUMAN	major facilitator superfamily domain containing	273					apoptosis	integral to membrane	tetracycline transporter activity				0				UCEC - Uterine corpus endometrioid carcinoma (64;0.163)		GCCCAGGCGGCGCAGGCTGCT	0.662													3	7					0	0	0.000602	0	0	
MFSD10	10227	broad.mit.edu	37	4	2933868	2933868	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:2933868C>T	uc003gfw.2	-	6	1020	c.706G>A	c.(706-708)GCC>ACC	p.A236T	MFSD10_uc003gfv.2_5'Flank|MFSD10_uc003gfx.2_Missense_Mutation_p.A60T|MFSD10_uc003gfz.2_Missense_Mutation_p.A236T|MFSD10_uc003gfy.2_RNA|MFSD10_uc003gga.2_Missense_Mutation_p.A236T|MFSD10_uc003ggb.1_Missense_Mutation_p.A236T|MFSD10_uc003ggc.2_Missense_Mutation_p.A236T|C4orf10_uc003ggd.1_5'Flank|C4orf10_uc003gge.1_5'Flank	NM_001120	NP_001111	Q14728	MFS10_HUMAN	major facilitator superfamily domain containing	236					apoptosis	integral to membrane	tetracycline transporter activity				0				UCEC - Uterine corpus endometrioid carcinoma (64;0.163)		AACCCCAGGGCGATAGAGGGC	0.662													4	4					0	0	0.001168	0	0	
MFSD10	10227	broad.mit.edu	37	4	2934476	2934476	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:2934476C>T	uc003gfw.2	-	4	696	c.382G>A	c.(382-384)GCC>ACC	p.A128T	MFSD10_uc003gfv.2_5'Flank|MFSD10_uc003gfx.2_Intron|MFSD10_uc003gfz.2_Missense_Mutation_p.A128T|MFSD10_uc003gfy.2_RNA|MFSD10_uc003gga.2_Missense_Mutation_p.A128T|MFSD10_uc003ggb.1_Missense_Mutation_p.A128T|MFSD10_uc003ggc.2_Missense_Mutation_p.A128T|C4orf10_uc003ggd.1_5'Flank|C4orf10_uc003gge.1_5'Flank|C4orf10_uc003ggg.1_5'Flank|C4orf10_uc003ggh.2_5'Flank	NM_001120	NP_001111	Q14728	MFS10_HUMAN	major facilitator superfamily domain containing	128	Helical; (Potential).				apoptosis	integral to membrane	tetracycline transporter activity				0				UCEC - Uterine corpus endometrioid carcinoma (64;0.163)		TATGAGGTGGCCACACCCATC	0.642													5	14					0	0	0.000602	0	0	
RGS12	6002	broad.mit.edu	37	4	3318578	3318578	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:3318578C>T	uc003ggw.2	+	2	1585	c.681C>T	c.(679-681)AAC>AAT	p.N227N	RGS12_uc003ggu.2_Silent_p.N227N|RGS12_uc010ics.1_Intron|RGS12_uc011bvr.1_RNA|RGS12_uc003ggv.2_Silent_p.N227N|RGS12_uc003ggx.1_Silent_p.N227N	NM_198229	NP_937872	O14924	RGS12_HUMAN	regulator of G-protein signalling 12 isoform 1	227						condensed nuclear chromosome|cytoplasm|plasma membrane	GTPase activator activity|receptor signaling protein activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		GTATTTTAAACGTGGCGATGA	0.468													12	61					0	0	0.002450	0	0	
LRPAP1	4043	broad.mit.edu	37	4	3519827	3519827	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:3519827G>A	uc003ghi.2	-	5	770	c.685C>T	c.(685-687)CGC>TGC	p.R229C		NM_002337	NP_002328	P30533	AMRP_HUMAN	low density lipoprotein receptor-related protein	229	Potential.				negative regulation of protein binding|negative regulation of very-low-density lipoprotein particle clearance|protein folding|vesicle-mediated transport	cell surface|integral to membrane|plasma membrane	asialoglycoprotein receptor activity|heparin binding|low-density lipoprotein particle receptor binding|receptor antagonist activity|unfolded protein binding|very-low-density lipoprotein particle receptor binding			ovary(1)|skin(1)	2				UCEC - Uterine corpus endometrioid carcinoma (64;0.165)		TTGATGCTGCGCAGCTTCTCC	0.627													4	22					0	0	0.009096	0	0	
D4S234E	27065	broad.mit.edu	37	4	4419079	4419079	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:4419079C>T	uc011bvz.1	+	8	1756	c.475C>T	c.(475-477)CGC>TGC	p.R159C	D4S234E_uc011bwa.1_Missense_Mutation_p.R120C|D4S234E_uc003ghz.2_Missense_Mutation_p.R159C|D4S234E_uc003gia.2_Missense_Mutation_p.R159C|D4S234E_uc003gib.2_Missense_Mutation_p.R159C	NM_014392	NP_055207	P42857	NSG1_HUMAN	brain neuron cytoplasmic protein 1	159	Lumenal (Potential).				dopamine receptor signaling pathway	Golgi membrane|integral to membrane|nucleus	dopamine receptor binding			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.166)		GAGCATCACGCGCTCCGTATC	0.547													41	118					0	0	0.002522	0	0	
STK32B	55351	broad.mit.edu	37	4	5458606	5458606	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:5458606T>C	uc003gih.1	+	8	803	c.739T>C	c.(739-741)TAC>CAC	p.Y247H	STK32B_uc010ida.1_Missense_Mutation_p.Y200H	NM_018401	NP_060871	Q9NY57	ST32B_HUMAN	serine/threonine kinase 32B	247	Protein kinase.						ATP binding|metal ion binding|protein serine/threonine kinase activity			breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						GCGTGTCCACTACTCCTCCAC	0.567													6	11					0	0	0.003080	0	0	
C4orf6	10141	broad.mit.edu	37	4	5527158	5527158	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:5527158G>A	uc003gii.2	+	1	276	c.101G>A	c.(100-102)CGC>CAC	p.R34H		NM_005750	NP_005741	Q99440	CD006_HUMAN	chromosome 4 open reading frame 6	34					nervous system development						0						gaaggaacacgcaaaaatttt	0													17	34					0	0	0.008871	0	0	
EVC	2121	broad.mit.edu	37	4	5803721	5803721	+	Silent	SNP	C	T	T	rs138114051		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:5803721C>T	uc003gil.1	+	16	2533	c.2349C>T	c.(2347-2349)AGC>AGT	p.S783S	EVC_uc003gim.1_RNA|CRMP1_uc003gin.1_Intron	NM_153717	NP_714928	P57679	EVC_HUMAN	Ellis van Creveld syndrome protein	783					muscle organ development	integral to membrane				ovary(1)|skin(1)	2		Myeloproliferative disorder(84;0.117)				ACGTGACCAGCGCTGGTGTCA	0.592													10	14					0	0	0.008291	0	0	
CRMP1	1400	broad.mit.edu	37	4	5838577	5838577	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:5838577G>A	uc003gip.2	-	11	1126	c.1025C>T	c.(1024-1026)GCG>GTG	p.A342V	CRMP1_uc003gin.1_Missense_Mutation_p.A254V|CRMP1_uc003giq.2_Missense_Mutation_p.A342V|CRMP1_uc003gir.2_Missense_Mutation_p.A337V|CRMP1_uc003gis.2_Missense_Mutation_p.A456V	NM_001313	NP_001304	Q14194	DPYL1_HUMAN	collapsin response mediator protein 1 isoform 2	342					axon guidance|pyrimidine base catabolic process	cytosol|microtubule organizing center|spindle	dihydropyrimidinase activity|protein binding			ovary(2)	2				Colorectal(103;0.0721)		CTTGCCCACCGCCTTCTGGGC	0.577													11	44					0	0	0.003163	0	0	
PPP2R2C	5522	broad.mit.edu	37	4	6374363	6374363	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:6374363C>T	uc003gjc.2	-	5	882	c.512G>A	c.(511-513)GGC>GAC	p.G171D	PPP2R2C_uc003gjb.2_Missense_Mutation_p.G154D|PPP2R2C_uc011bwd.1_Missense_Mutation_p.G164D|PPP2R2C_uc011bwe.1_Missense_Mutation_p.G164D|PPP2R2C_uc003gja.2_Missense_Mutation_p.G171D|PPP2R2C_uc003gjd.1_Missense_Mutation_p.G259D	NM_020416	NP_065149	Q9Y2T4	2ABG_HUMAN	gamma isoform of regulatory subunit B55, protein	171	WD 3.				signal transduction	protein phosphatase type 2A complex	protein phosphatase type 2A regulator activity			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4						GTAGGTGTGGCCATTGGCAAA	0.587													24	68					0	0	0.004656	0	0	
MAN2B2	23324	broad.mit.edu	37	4	6612965	6612965	+	Silent	SNP	G	A	A	rs138297924	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:6612965G>A	uc003gjf.1	+	15	2559	c.2523G>A	c.(2521-2523)GCG>GCA	p.A841A	MAN2B2_uc003gje.1_Silent_p.A841A|MAN2B2_uc011bwf.1_Silent_p.A790A	NM_015274	NP_056089	Q9Y2E5	MA2B2_HUMAN	mannosidase, alpha, class 2B, member 2	841					mannose metabolic process	extracellular region	alpha-mannosidase activity|carbohydrate binding|zinc ion binding			ovary(2)	2						GCGCACTGGCGCTGCAGCACA	0.637													7	28					0	0	0.003080	0	0	
TADA2B	93624	broad.mit.edu	37	4	7056185	7056185	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:7056185G>A	uc003gjw.3	+	2	818	c.667G>A	c.(667-669)GCC>ACC	p.A223T	TADA2B_uc010idi.2_Missense_Mutation_p.A148T	NM_152293	NP_689506	Q86TJ2	TAD2B_HUMAN	transcriptional adaptor 2 (ADA2 homolog,	223					regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|zinc ion binding				0						GAAGAACATCGCCCGTGACTA	0.567													7	70					0	0	0.001984	0	0	
PSAPL1	768239	broad.mit.edu	37	4	7435640	7435640	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:7435640G>A	uc011bwj.1	-	1	1061	c.967C>T	c.(967-969)CGC>TGC	p.R323C	SORCS2_uc003gkb.3_Intron|SORCS2_uc011bwi.1_Intron	NM_001085382	NP_001078851	Q6NUJ1	SAPL1_HUMAN	prosaposin-like protein 1	323	Saposin B-type 3.				sphingolipid metabolic process	extracellular region|lysosome					0						GAGCACACGCGCTCCAGGGCA	0.582													14	50					0	0	0.002450	0	0	
ABLIM2	84448	broad.mit.edu	37	4	8010821	8010821	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:8010821G>A	uc003gko.2	-	14	1476	c.1333C>T	c.(1333-1335)CGA>TGA	p.R445*	ABLIM2_uc003gkk.2_Nonsense_Mutation_p.R108*|ABLIM2_uc003gkl.2_Nonsense_Mutation_p.R172*|ABLIM2_uc003gkj.3_Nonsense_Mutation_p.R478*|ABLIM2_uc003gkm.3_Nonsense_Mutation_p.R393*|ABLIM2_uc003gkp.2_Nonsense_Mutation_p.R404*|ABLIM2_uc003gkq.2_Nonsense_Mutation_p.R445*|ABLIM2_uc003gkr.2_Nonsense_Mutation_p.R393*|ABLIM2_uc003gks.3_Nonsense_Mutation_p.R404*	NM_001130084	NP_001123556	Q6H8Q1	ABLM2_HUMAN	actin binding LIM protein family, member 2	445					axon guidance|cytoskeleton organization	actin cytoskeleton|cytoplasm|intermediate filament cytoskeleton|nucleus	actin binding|zinc ion binding			pancreas(3)	3						CCATCCGATCGCCTGGCAGCT	0.483													7	91					0	0	0.006214	0	0	
SH3TC1	54436	broad.mit.edu	37	4	8230088	8230088	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:8230088C>T	uc003gkv.3	+	12	2768	c.2667C>T	c.(2665-2667)GCC>GCT	p.A889A	SH3TC1_uc003gkw.3_Silent_p.A813A|SH3TC1_uc003gkx.3_RNA|SH3TC1_uc003gky.2_5'Flank	NM_018986	NP_061859	Q8TE82	S3TC1_HUMAN	SH3 domain and tetratricopeptide repeats 1	889	TPR 5.						binding			large_intestine(2)|pancreas(1)	3						ACTACCGCGCCCTGCGGGTGG	0.697													5	16					0	0	0.003080	0	0	
SH3TC1	54436	broad.mit.edu	37	4	8233879	8233879	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:8233879G>A	uc003gkv.3	+	13	3228	c.3127G>A	c.(3127-3129)GAG>AAG	p.E1043K	SH3TC1_uc003gkw.3_Missense_Mutation_p.E967K|SH3TC1_uc003gkx.3_RNA|SH3TC1_uc003gky.2_RNA	NM_018986	NP_061859	Q8TE82	S3TC1_HUMAN	SH3 domain and tetratricopeptide repeats 1	1043	TPR 7.						binding			large_intestine(2)|pancreas(1)	3						CCTGGGCACCGAGCGGTGAGG	0.512													5	9					0	0	0.001168	0	0	
ACOX3	8310	broad.mit.edu	37	4	8368787	8368787	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:8368787G>A	uc010idk.2	-	18	2149	c.2004C>T	c.(2002-2004)GGC>GGT	p.G668G	ACOX3_uc003glc.3_Silent_p.G668G|ACOX3_uc003gld.3_3'UTR	NM_003501	NP_003492	O15254	ACOX3_HUMAN	acyl-Coenzyme A oxidase 3 isoform a	668					bile acid metabolic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|pristanoyl-CoA oxidase activity			central_nervous_system(1)	1						GCAGGACAGCGCCCCAGAGGT	0.478													22	41					0	0	0.002780	0	0	
ACOX3	8310	broad.mit.edu	37	4	8398744	8398744	+	Missense_Mutation	SNP	C	T	T	rs116281866	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:8398744C>T	uc010idk.2	-	9	1121	c.976G>A	c.(976-978)GCT>ACT	p.A326T	ACOX3_uc003glc.3_Missense_Mutation_p.A326T|ACOX3_uc003gld.3_Missense_Mutation_p.A326T|ACOX3_uc003gle.1_Missense_Mutation_p.A231T	NM_003501	NP_003492	O15254	ACOX3_HUMAN	acyl-Coenzyme A oxidase 3 isoform a	326					bile acid metabolic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|pristanoyl-CoA oxidase activity			central_nervous_system(1)	1						AAGCGAAGAGCGATGGCCACG	0.587													16	46					0	0	0.004007	0	0	
ACOX3	8310	broad.mit.edu	37	4	8416072	8416072	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:8416072C>T	uc010idk.2	-	5	635	c.490G>A	c.(490-492)GGC>AGC	p.G164S	ACOX3_uc003glc.3_Missense_Mutation_p.G164S|ACOX3_uc003gld.3_Missense_Mutation_p.G164S|ACOX3_uc003gle.1_Missense_Mutation_p.G69S	NM_003501	NP_003492	O15254	ACOX3_HUMAN	acyl-Coenzyme A oxidase 3 isoform a	164					bile acid metabolic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|pristanoyl-CoA oxidase activity			central_nervous_system(1)	1						GTATTACTGCCGTGGCTTAAT	0.463													18	49					0	0	0.004990	0	0	
DRD5	1816	broad.mit.edu	37	4	9784507	9784507	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:9784507G>A	uc003gmb.3	+	1	1250	c.854G>A	c.(853-855)CGC>CAC	p.R285H		NM_000798	NP_000789	P21918	DRD5_HUMAN	dopamine receptor D5	285	Cytoplasmic (Potential).				activation of adenylate cyclase activity by dopamine receptor signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|cellular calcium ion homeostasis|negative regulation of NAD(P)H oxidase activity|reactive oxygen species metabolic process|synaptic transmission, dopaminergic	integral to plasma membrane				skin(1)	1					Apomorphine(DB00714)|Carphenazine(DB01038)|Fenoldopam(DB00800)|Zuclopenthixol(DB01624)	ACCAGCCTGCGCGCTTCCATC	0.627													9	24					0	0	0.002450	0	0	
HS3ST1	9957	broad.mit.edu	37	4	11401090	11401090	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:11401090G>A	uc003gmq.2	-	2	863	c.540C>T	c.(538-540)CGC>CGT	p.R180R		NM_005114	NP_005105	O14792	HS3S1_HUMAN	heparan sulfate D-glucosaminyl	180						Golgi lumen|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity			skin(1)	1						GCCTGCCATCGCGCACCAGGA	0.587													18	31					0	0	0.002780	0	0	
BOD1L	259282	broad.mit.edu	37	4	13603266	13603266	+	Missense_Mutation	SNP	C	T	T	rs112328769		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:13603266C>T	uc003gmz.1	-	10	5375	c.5258G>A	c.(5257-5259)CGC>CAC	p.R1753H	BOD1L_uc010idr.1_Missense_Mutation_p.R1090H	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	1753							DNA binding			ovary(5)|breast(1)	6						TGTAACCATGCGTTCCTCCCG	0.498													51	153					0	0	0.003610	0	0	
BOD1L	259282	broad.mit.edu	37	4	13603592	13603592	+	Silent	SNP	G	A	A	rs144172082	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:13603592G>A	uc003gmz.1	-	10	5049	c.4932C>T	c.(4930-4932)AGC>AGT	p.S1644S	BOD1L_uc010idr.1_Silent_p.S981S	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	1644							DNA binding			ovary(5)|breast(1)	6						CTGTCACAACGCTATTTACAT	0.453													44	148					0	0	0.003214	0	0	
BOD1L	259282	broad.mit.edu	37	4	13616946	13616946	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:13616946A>G	uc003gmz.1	-	3	666	c.549T>C	c.(547-549)CTT>CTC	p.L183L	BOD1L_uc010idr.1_5'UTR|BOD1L_uc010ids.1_RNA	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	183							DNA binding			ovary(5)|breast(1)	6						CTTGTGTAATAAGGGAAGTGT	0.408													5	192					0	0	0.001168	0	0	
LAP3	51056	broad.mit.edu	37	4	17586688	17586688	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:17586688G>A	uc003gph.1	+	6	795	c.633G>A	c.(631-633)ACG>ACA	p.T211T	LAP3_uc010ieg.2_3'UTR	NM_015907	NP_056991	P28838	AMPL_HUMAN	leucine aminopeptidase 3	211					proteolysis	nucleus	aminopeptidase activity|magnesium ion binding|manganese ion binding|metalloexopeptidase activity|zinc ion binding				0						ATGAGATGACGCCAACCAGAT	0.453													8	95					0	0	0.006214	0	0	
SLIT2	9353	broad.mit.edu	37	4	20570602	20570602	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:20570602A>G	uc003gpr.1	+	29	3267	c.3063A>G	c.(3061-3063)ACA>ACG	p.T1021T	SLIT2_uc003gps.1_Silent_p.T1013T	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	1021	EGF-like 3; calcium-binding (Potential).				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						ATAACTACACATGCCTTTGCC	0.333													14	60					0	0	0.004007	0	0	
SLIT2	9353	broad.mit.edu	37	4	20597356	20597356	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:20597356C>T	uc003gpr.1	+	31	3423	c.3219C>T	c.(3217-3219)TGC>TGT	p.C1073C	SLIT2_uc003gps.1_Silent_p.C1065C	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	1073	EGF-like 4.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						GTGAACACTGCGACATCGATT	0.463													47	159					0	0	0.003610	0	0	
PI4K2B	55300	broad.mit.edu	37	4	25270822	25270822	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:25270822T>C	uc003grk.2	+	9	1402	c.1269T>C	c.(1267-1269)GGT>GGC	p.G423G	PI4K2B_uc011bxs.1_Silent_p.G327G	NM_018323	NP_060793	Q8TCG2	P4K2B_HUMAN	phosphatidylinositol 4-kinase type 2 beta	423	PI3K/PI4K.					cytoplasm|membrane	1-phosphatidylinositol 4-kinase activity|ATP binding			ovary(2)|skin(2)	4		Breast(46;0.173)				TGATGAGGGGTCAGGTAAGTT	0.333													7	87					0	0	0.001984	0	0	
RBPJ	3516	broad.mit.edu	37	4	26407807	26407807	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:26407807C>T	uc003grx.1	+	4	345	c.109C>T	c.(109-111)CGA>TGA	p.R37*	RBPJ_uc003gry.1_Nonsense_Mutation_p.R22*|RBPJ_uc003grz.1_Nonsense_Mutation_p.R37*|RBPJ_uc011bxt.1_Nonsense_Mutation_p.R37*|RBPJ_uc003gsa.1_Nonsense_Mutation_p.R23*|RBPJ_uc003gsb.1_Nonsense_Mutation_p.R24*|RBPJ_uc003gsc.1_Nonsense_Mutation_p.R23*	NM_005349	NP_005340	Q06330	SUH_HUMAN	recombining binding protein suppressor of	37					DNA recombination|negative regulation of transcription, DNA-dependent|positive regulation of transcription of Notch receptor target	cytoplasm|nucleolus|nucleoplasm	DNA binding|protein binding|recombinase activity|sequence-specific DNA binding transcription factor activity			ovary(1)|lung(1)|central_nervous_system(1)	3		Breast(46;0.0503)				GGAAGCTATGCGAAATTATTT	0.323													14	57					0	0	0.004007	0	0	
RBPJ	3516	broad.mit.edu	37	4	26431567	26431567	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:26431567C>T	uc003grx.1	+	10	1211	c.975C>T	c.(973-975)GGC>GGT	p.G325G	RBPJ_uc003gry.1_Silent_p.G310G|RBPJ_uc003grz.1_Silent_p.G325G|RBPJ_uc011bxt.1_Silent_p.G325G|RBPJ_uc003gsa.1_Silent_p.G311G|RBPJ_uc003gsb.1_Silent_p.G312G|RBPJ_uc003gsc.1_Silent_p.G311G	NM_005349	NP_005340	Q06330	SUH_HUMAN	recombining binding protein suppressor of	325					DNA recombination|negative regulation of transcription, DNA-dependent|positive regulation of transcription of Notch receptor target	cytoplasm|nucleolus|nucleoplasm	DNA binding|protein binding|recombinase activity|sequence-specific DNA binding transcription factor activity			ovary(1)|lung(1)|central_nervous_system(1)	3		Breast(46;0.0503)				TAAATGATGGCGCTTCCTGGA	0.403													14	52					0	0	0.002450	0	0	
STIM2	57620	broad.mit.edu	37	4	27019446	27019446	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:27019446G>A	uc003gsh.3	+	12	2104	c.1888G>A	c.(1888-1890)GCC>ACC	p.A630T	STIM2_uc003gsg.3_Missense_Mutation_p.A622T|STIM2_uc010iex.2_Missense_Mutation_p.A622T|STIM2_uc010iey.2_Missense_Mutation_p.A246T	NM_020860	NP_065911	Q9P246	STIM2_HUMAN	stromal interaction molecule 2	535	Cytoplasmic (Potential).|His/Pro-rich.				activation of store-operated calcium channel activity|calcium ion transport|cellular calcium ion homeostasis|negative regulation of calcium ion transport via store-operated calcium channel activity	endoplasmic reticulum membrane|integral to membrane|plasma membrane	calcium channel regulator activity|calcium ion binding|protein binding			central_nervous_system(1)|skin(1)	2		Breast(46;0.0503)				TGCTCCACACGCCCCCCACCC	0.622													36	100					0	0	0.003755	0	0	
PCDH7	5099	broad.mit.edu	37	4	30723444	30723444	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:30723444C>T	uc003gsk.1	+	1	1408	c.400C>T	c.(400-402)CTT>TTT	p.L134F	PCDH7_uc011bxw.1_Missense_Mutation_p.L134F|PCDH7_uc011bxx.1_Missense_Mutation_p.L134F	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	134	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						GGTCATCGTGCTTGACATCAA	0.612													6	8					0	0	0.003080	0	0	
PCDH7	5099	broad.mit.edu	37	4	30724207	30724207	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:30724207G>A	uc003gsk.1	+	1	2171	c.1163G>A	c.(1162-1164)CGC>CAC	p.R388H	PCDH7_uc011bxw.1_Missense_Mutation_p.R341H|PCDH7_uc011bxx.1_Missense_Mutation_p.R388H	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	388	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						GTCATGGCCCGCGACCGCGGG	0.642													8	19					0	0	0.008291	0	0	
PCDH7	5099	broad.mit.edu	37	4	30724342	30724342	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:30724342C>T	uc003gsk.1	+	1	2306	c.1298C>T	c.(1297-1299)GCC>GTC	p.A433V	PCDH7_uc011bxw.1_Missense_Mutation_p.A386V|PCDH7_uc011bxx.1_Missense_Mutation_p.A433V	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	433	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						GCCAACGTGGCCGAGGACGTT	0.622													3	22					0	0	0.009096	0	0	
PCDH7	5099	broad.mit.edu	37	4	30725052	30725052	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:30725052C>T	uc003gsk.1	+	1	3016	c.2008C>T	c.(2008-2010)CGG>TGG	p.R670W	PCDH7_uc011bxw.1_Missense_Mutation_p.R623W|PCDH7_uc011bxx.1_Missense_Mutation_p.R670W	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	670	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						TGACAAGGGGCGGAATGCAGA	0.463													30	71					0	0	0.007291	0	0	
PCDH7	5099	broad.mit.edu	37	4	30732378	30732378	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:30732378C>T	uc003gsk.1	+	2	4186	c.3178C>T	c.(3178-3180)CGT>TGT	p.R1060C	PCDH7_uc011bxw.1_Intron|PCDH7_uc011bxx.1_Intron	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	1060	Cytoplasmic (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						CTTTCAGATGCGTCTACATCC	0.373													25	61					0	0	0.008361	0	0	
ARAP2	116984	broad.mit.edu	37	4	36085059	36085059	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:36085059T>C	uc003gsq.1	-	29	4777	c.4439A>G	c.(4438-4440)GAC>GGC	p.D1480G		NM_015230	NP_056045	Q8WZ64	ARAP2_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	1480	PH 5.				regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytosol	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						AAACATCTTGTCATGTTTACT	0.313													6	17					0	0	0.001984	0	0	
ARAP2	116984	broad.mit.edu	37	4	36179566	36179566	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:36179566C>T	uc003gsq.1	-	9	2078	c.1740G>A	c.(1738-1740)TCG>TCA	p.S580S	ARAP2_uc003gsr.1_Silent_p.S580S	NM_015230	NP_056045	Q8WZ64	ARAP2_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	580					regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytosol	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						CTTGAGACTGCGAGGTAAGGG	0.378													16	73					0	0	0.006122	0	0	
RELL1	768211	broad.mit.edu	37	4	37651073	37651073	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:37651073C>T	uc003gsz.2	-	2	228	c.138G>A	c.(136-138)TCG>TCA	p.S46S	RELL1_uc010ifc.2_Silent_p.S46S	NM_001085399	NP_001078868	Q8IUW5	RELL1_HUMAN	receptor expressed in lymphoid tissues like 1	46	Extracellular (Potential).					cytoplasm|integral to membrane|microtubule cytoskeleton|plasma membrane					0						CGTTGCTGGGCGACGGGGTCG	0.502													17	148					0	0	0.006122	0	0	
FAM114A1	92689	broad.mit.edu	37	4	38907188	38907188	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:38907188G>A	uc003gtn.2	+	5	658	c.482G>A	c.(481-483)CGG>CAG	p.R161Q	FAM114A1_uc011byh.1_5'UTR	NM_138389	NP_612398	Q8IWE2	NXP20_HUMAN	hypothetical protein LOC92689	161						cytoplasm				ovary(1)	1						GCCACTCTACGGATTCATGGT	0.443													29	88					0	0	0.006999	0	0	
WDR19	57728	broad.mit.edu	37	4	39278679	39278679	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:39278679A>G	uc003gtv.2	+	34	3910	c.3756A>G	c.(3754-3756)CCA>CCG	p.P1252P	WDR19_uc011byi.1_Silent_p.P1092P	NM_025132	NP_079408	Q8NEZ3	WDR19_HUMAN	WD repeat domain 19	1252					cell projection organization	microtubule basal body|motile cilium|photoreceptor connecting cilium	binding			large_intestine(1)	1						CCACGACTCCATGTCCATTCT	0.423													21	110					0	0	0.004656	0	0	
RFC1	5981	broad.mit.edu	37	4	39290444	39290444	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:39290444C>T	uc003gty.1	-	25	3518	c.3384G>A	c.(3382-3384)AAG>AAA	p.K1128K	RFC1_uc003gtx.1_Silent_p.K1127K	NM_002913	NP_002904	P35251	RFC1_HUMAN	replication factor C large subunit	1128					DNA strand elongation involved in DNA replication|nucleotide-excision repair, DNA gap filling|regulation of transcription, DNA-dependent|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|telomere maintenance via telomerase|transcription, DNA-dependent|transcription-coupled nucleotide-excision repair	DNA replication factor C complex|nucleoplasm	ATP binding|DNA clamp loader activity|enzyme activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4						GTTTTGAAGGCTTTGAAGATT	0.328													21	67					0	0	0.001882	0	0	
PDS5A	23244	broad.mit.edu	37	4	39929664	39929664	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:39929664G>A	uc003guv.3	-	3	799	c.259C>T	c.(259-261)CGT>TGT	p.R87C	PDS5A_uc010ifo.2_Missense_Mutation_p.R47C|PDS5A_uc003guw.3_Missense_Mutation_p.R87C	NM_001100399	NP_001093869	Q29RF7	PDS5A_HUMAN	PDS5, regulator of cohesion maintenance, homolog	87					cell division|mitosis|negative regulation of DNA replication	chromatin|nucleus	identical protein binding				0						ACAAGGAGACGCACATCTTTA	0.418													14	59					0	0	0.004990	0	0	
N4BP2	55728	broad.mit.edu	37	4	40104327	40104327	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:40104327G>A	uc003guy.3	+	4	1200	c.862G>A	c.(862-864)GCC>ACC	p.A288T	N4BP2_uc010ifq.2_Missense_Mutation_p.A208T|N4BP2_uc010ifr.2_Missense_Mutation_p.A208T	NM_018177	NP_060647	Q86UW6	N4BP2_HUMAN	Nedd4 binding protein 2	288						cytoplasm	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|endonuclease activity|protein binding			lung(3)|breast(2)|kidney(2)|ovary(1)	8						AGATTTGGATGCCAGTGAACC	0.453													7	75					0	0	0.006214	0	0	
RHOH	399	broad.mit.edu	37	4	40245073	40245073	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:40245073C>T	uc003guz.2	+	3	791	c.67C>T	c.(67-69)CGC>TGC	p.R23C		NM_004310	NP_004301	Q15669	RHOH_HUMAN	ras homolog gene family, member H precursor	23					negative regulation of I-kappaB kinase/NF-kappaB cascade|regulation of small GTPase mediated signal transduction|regulation of transcription, DNA-dependent|small GTPase mediated signal transduction|T cell differentiation	cytosol|mitochondrion|plasma membrane	GTP binding|GTPase inhibitor activity|kinase inhibitor activity|Rho GTPase binding	p.R23H(1)		ovary(1)|lung(1)	2						TCTGTTGGTGCGCTTCACCTC	0.577													27	49					0	0	0.004656	0	0	
RBM47	54502	broad.mit.edu	37	4	40440533	40440533	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:40440533G>A	uc003gvc.2	-	4	1088	c.378C>T	c.(376-378)CGC>CGT	p.R126R	RBM47_uc003gvd.2_Silent_p.R126R|RBM47_uc003gve.2_RNA|RBM47_uc011bys.1_Silent_p.R88R|RBM47_uc003gvg.1_Silent_p.R126R	NM_001098634	NP_001092104	A0AV96	RBM47_HUMAN	RNA binding motif protein 47 isoform a	126	RRM 1.					nucleus	nucleotide binding|RNA binding			breast(3)	3						CACGCACTGCGCGCTTGGCCT	0.647													6	20					0	0	0.001168	0	0	
UCHL1	7345	broad.mit.edu	37	4	41266152	41266152	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:41266152G>A	uc003gvo.2	+	8	655	c.559G>A	c.(559-561)GCC>ACC	p.A187T	UCHL1_uc003gvp.2_Missense_Mutation_p.A106T|UCHL1_uc003gvq.2_Missense_Mutation_p.A106T|UCHL1_uc003gvr.2_Missense_Mutation_p.A106T|UCHL1_uc003gvs.2_Missense_Mutation_p.A106T	NM_004181	NP_004172	P09936	UCHL1_HUMAN	ubiquitin carboxyl-terminal esterase L1	187					cell death|negative regulation of MAP kinase activity|protein deubiquitination|ubiquitin-dependent protein catabolic process	nucleus|plasma membrane	alpha-2A adrenergic receptor binding|cysteine-type endopeptidase activity|ligase activity|omega peptidase activity|ubiquitin binding|ubiquitin thiolesterase activity			central_nervous_system(1)|skin(1)	2						GAACCATGGCGCCAGTTCAGA	0.443													35	82					0	0	0.006999	0	0	
LIMCH1	22998	broad.mit.edu	37	4	41664914	41664914	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:41664914G>A	uc003gvu.3	+	15	2103	c.2049G>A	c.(2047-2049)CAG>CAA	p.Q683Q	LIMCH1_uc003gvv.3_Silent_p.Q683Q|LIMCH1_uc003gvw.3_Silent_p.Q683Q|LIMCH1_uc003gvx.3_Silent_p.Q671Q|LIMCH1_uc003gwe.3_Silent_p.Q683Q|LIMCH1_uc003gvy.3_Silent_p.Q512Q|LIMCH1_uc003gwa.3_Silent_p.Q524Q|LIMCH1_uc003gvz.3_Silent_p.Q1068Q|LIMCH1_uc011byu.1_Silent_p.Q517Q|LIMCH1_uc003gwc.3_Silent_p.Q529Q|LIMCH1_uc003gwd.3_Silent_p.Q517Q|LIMCH1_uc011byv.1_Silent_p.Q434Q|LIMCH1_uc011byw.1_5'UTR	NM_014988	NP_055803	Q9UPQ0	LIMC1_HUMAN	LIM and calponin homology domains 1 isoform a	683					actomyosin structure organization		actin binding|zinc ion binding			ovary(2)|pancreas(1)|skin(1)	4						CCAGCCCCCAGCTGAAGAATG	0.473													14	45					0	0	0.002450	0	0	
LIMCH1	22998	broad.mit.edu	37	4	41668613	41668613	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:41668613G>A	uc003gvu.3	+	16	2226	c.2172G>A	c.(2170-2172)ACG>ACA	p.T724T	LIMCH1_uc003gvv.3_Silent_p.T724T|LIMCH1_uc003gvw.3_Silent_p.T724T|LIMCH1_uc003gvx.3_Silent_p.T712T|LIMCH1_uc003gwe.3_Intron|LIMCH1_uc003gvy.3_Silent_p.T553T|LIMCH1_uc003gwa.3_Silent_p.T565T|LIMCH1_uc003gvz.3_Silent_p.T1109T|LIMCH1_uc011byu.1_Silent_p.T558T|LIMCH1_uc003gwc.3_Silent_p.T570T|LIMCH1_uc003gwd.3_Silent_p.T558T|LIMCH1_uc011byv.1_Silent_p.T475T|LIMCH1_uc011byw.1_Silent_p.T24T	NM_014988	NP_055803	Q9UPQ0	LIMC1_HUMAN	LIM and calponin homology domains 1 isoform a	724					actomyosin structure organization		actin binding|zinc ion binding			ovary(2)|pancreas(1)|skin(1)	4						CCGAAGCAACGCTGACATTTC	0.403													17	56					0	0	0.010504	0	0	
DCAF4L1	285429	broad.mit.edu	37	4	41984291	41984291	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:41984291C>T	uc003gwk.2	+	1	579	c.482C>T	c.(481-483)GCG>GTG	p.A161V		NM_001029955	NP_001025126	Q3SXM0	DC4L1_HUMAN	WD repeat domain 21B	161										skin(1)	1						CTGCTCCCAGCGTCGCGGTTC	0.572													29	80					0	0	0.007291	0	0	
GABRA4	2557	broad.mit.edu	37	4	46967169	46967169	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:46967169C>T	uc003gxg.2	-	8	1091	c.952G>A	c.(952-954)GCC>ACC	p.A318T		NM_000809	NP_000800	P48169	GBRA4_HUMAN	gamma-aminobutyric acid A receptor, alpha 4	318	Helical; (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)	4					Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	CAGTCCATGGCGGTAGCATAG	0.438													45	107					0	0	0.002852	0	0	
TEC	7006	broad.mit.edu	37	4	48230566	48230566	+	Silent	SNP	C	T	T	rs143430739	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:48230566C>T	uc003gxz.2	-	2	157	c.66G>A	c.(64-66)TCG>TCA	p.S22S		NM_003215	NP_003206	P42680	TEC_HUMAN	tec protein tyrosine kinase	22	PH.				intracellular protein kinase cascade	cytosol	ATP binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(4)|stomach(1)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)	9						AGTTTAAGGGCGATGTCTTCT	0.388													6	66					0	0	0.001168	0	0	
FRYL	285527	broad.mit.edu	37	4	48591779	48591779	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:48591779C>T	uc003gyh.1	-	18	2228	c.1623G>A	c.(1621-1623)GAG>GAA	p.E541E	FRYL_uc003gyk.2_Silent_p.E541E	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	541					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						TGTCTTCAGGCTCCTTATTAG	0.398													34	99					0	0	0.004289	0	0	
DCUN1D4	23142	broad.mit.edu	37	4	52765528	52765528	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:52765528C>T	uc003gze.2	+	8	732	c.599C>T	c.(598-600)GCG>GTG	p.A200V	DCUN1D4_uc003gzf.2_Missense_Mutation_p.A200V|DCUN1D4_uc011bzn.1_Missense_Mutation_p.A140V|DCUN1D4_uc003gzg.2_RNA|DCUN1D4_uc003gzh.2_RNA|DCUN1D4_uc011bzo.1_Missense_Mutation_p.A244V	NM_001040402	NP_001035492	Q92564	DCNL4_HUMAN	DCN1, defective in cullin neddylation 1, domain	200	DCUN1.									ovary(2)	2			GBM - Glioblastoma multiforme(4;1.93e-11)|LUSC - Lung squamous cell carcinoma(32;0.00654)			TACAGATATGCGTTTGACTTT	0.353													4	19					0	0	0.000602	0	0	
SGCB	6443	broad.mit.edu	37	4	52895985	52895985	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:52895985G>A	uc003gzj.2	-	3	348	c.288C>T	c.(286-288)GGC>GGT	p.G96G	SGCB_uc011bzp.1_Silent_p.G26G	NM_000232	NP_000223	Q16585	SGCB_HUMAN	sarcoglycan, beta	96	Extracellular (Potential).				cytoskeleton organization|muscle organ development	cytoplasm|cytoskeleton|integral to plasma membrane|sarcoglycan complex|sarcolemma					0			GBM - Glioblastoma multiforme(4;7.63e-12)|LUSC - Lung squamous cell carcinoma(32;0.00204)			TACTATCACAGCCATTTGGTC	0.418													8	52					0	0	0.008291	0	0	
SGCB	6443	broad.mit.edu	37	4	52895995	52895995	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:52895995C>T	uc003gzj.2	-	3	338	c.278G>A	c.(277-279)GGA>GAA	p.G93E	SGCB_uc011bzp.1_Missense_Mutation_p.G23E	NM_000232	NP_000223	Q16585	SGCB_HUMAN	sarcoglycan, beta	93	Extracellular (Potential).				cytoskeleton organization|muscle organ development	cytoplasm|cytoskeleton|integral to plasma membrane|sarcoglycan complex|sarcolemma					0			GBM - Glioblastoma multiforme(4;7.63e-12)|LUSC - Lung squamous cell carcinoma(32;0.00204)			GCCATTTGGTCCAATGCGAAT	0.403													4	57					0	0	0.001168	0	0	
USP46	64854	broad.mit.edu	37	4	53494163	53494163	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:53494163G>A	uc003gzn.2	-	3	470	c.285C>T	c.(283-285)GGC>GGT	p.G95G	USP46_uc003gzm.3_Silent_p.G88G|USP46_uc011bzr.1_Silent_p.G72G|USP46_uc011bzs.1_5'UTR	NM_022832	NP_073743	P62068	UBP46_HUMAN	ubiquitin specific peptidase 46 isoform 1	95					behavior|protein deubiquitination|regulation of synaptic transmission, GABAergic|ubiquitin-dependent protein catabolic process		protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(1)	1			LUSC - Lung squamous cell carcinoma(32;0.0295)			GTGGGATGACGCCAACCTTCT	0.438													12	25					0	0	0.001368	0	0	
SCFD2	152579	broad.mit.edu	37	4	53773693	53773693	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:53773693G>A	uc003gzu.2	-	7	1907	c.1773C>T	c.(1771-1773)TCC>TCT	p.S591S	SCFD2_uc010igm.2_Intron	NM_152540	NP_689753	Q8WU76	SCFD2_HUMAN	sec1 family domain containing 2	591					protein transport|vesicle docking involved in exocytosis					ovary(2)|pancreas(1)	3			GBM - Glioblastoma multiforme(3;1.07e-26)|LUSC - Lung squamous cell carcinoma(32;0.0134)			CAATATCAACGGAATCTGGCC	0.403													37	87					0	0	0.006230	0	0	
LNX1	84708	broad.mit.edu	37	4	54364904	54364904	+	Silent	SNP	G	A	A	rs138813024		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:54364904G>A	uc003hag.3	-	5	1138	c.882C>T	c.(880-882)AGC>AGT	p.S294S	PDGFRA_uc003haa.2_Intron|LNX1_uc003haf.3_Silent_p.S198S|LNX1_uc003hah.3_Intron	NM_001126328	NP_001119800	Q8TBB1	LNX1_HUMAN	ligand of numb-protein X 1 isoform a	294	PDZ 1.					cytoplasm	zinc ion binding			ovary(2)|central_nervous_system(2)	4	all_neural(26;0.153)		GBM - Glioblastoma multiforme(3;8.2e-46)|LUSC - Lung squamous cell carcinoma(32;0.0134)			GTGGGGTTTCGCTACCTCCCA	0.488													22	54					0	0	0.001882	0	0	
LNX1	84708	broad.mit.edu	37	4	54373579	54373579	+	Missense_Mutation	SNP	G	A	A	rs147992678	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:54373579G>A	uc003hag.3	-	4	936	c.680C>T	c.(679-681)GCT>GTT	p.A227V	PDGFRA_uc003haa.2_Intron|LNX1_uc003haf.3_Missense_Mutation_p.A131V|LNX1_uc003hah.3_Intron	NM_001126328	NP_001119800	Q8TBB1	LNX1_HUMAN	ligand of numb-protein X 1 isoform a	227						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)			AACACTCAAAGCTCGATTTAT	0.448													21	40					0	0	0.008871	0	0	
KIAA1211	57482	broad.mit.edu	37	4	57180790	57180790	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:57180790G>A	uc003hbk.2	+	8	1513	c.1122G>A	c.(1120-1122)CAG>CAA	p.Q374Q	KIAA1211_uc010iha.2_Silent_p.Q367Q|KIAA1211_uc011bzz.1_Silent_p.Q284Q|KIAA1211_uc003hbm.1_Silent_p.Q260Q	NM_020722	NP_065773	Q6ZU35	K1211_HUMAN	hypothetical protein LOC57482	374	Glu-rich.									ovary(1)|skin(1)	2	Glioma(25;0.08)|all_neural(26;0.101)					agctggaacagcaggaggcgg	0.03													5	3					0	0	0.001168	0	0	
REST	5978	broad.mit.edu	37	4	57798266	57798266	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:57798266G>A	uc003hch.2	+	4	3589	c.3242G>A	c.(3241-3243)CGC>CAC	p.R1081H	REST_uc003hci.2_Missense_Mutation_p.R1081H|REST_uc010ihf.2_Missense_Mutation_p.R755H	NM_005612	NP_005603	Q13127	REST_HUMAN	RE1-silencing transcription factor	1081	C2H2-type 9.|Interaction with RCOR1.				cardiac muscle cell myoblast differentiation|cellular response to drug|cellular response to electrical stimulus|cellular response to glucocorticoid stimulus|histone H4 deacetylation|negative regulation by host of viral transcription|negative regulation of aldosterone biosynthetic process|negative regulation of calcium ion-dependent exocytosis|negative regulation of cell proliferation|negative regulation of cortisol biosynthetic process|negative regulation of dense core granule biogenesis|negative regulation of insulin secretion|negative regulation of mesenchymal stem cell differentiation|negative regulation of neurogenesis|negative regulation of neuron differentiation|positive regulation of apoptosis|positive regulation of caspase activity|positive regulation of transcription, DNA-dependent	cytoplasm|transcriptional repressor complex	calcium channel activity|chromatin binding|core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|outward rectifier potassium channel activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|zinc ion binding			skin(5)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	9	Glioma(25;0.08)|all_neural(26;0.181)					CACCTCAATCGCCATTTGGTT	0.393													10	110					0	0	0.001368	0	0	
POLR2B	5431	broad.mit.edu	37	4	57889686	57889686	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:57889686C>T	uc003hcl.1	+	19	2749	c.2706C>T	c.(2704-2706)GGC>GGT	p.G902G	POLR2B_uc011cae.1_Silent_p.G895G|POLR2B_uc011caf.1_Silent_p.G827G|POLR2B_uc003hcm.1_Silent_p.G395G	NM_000938	NP_000929	P30876	RPB2_HUMAN	DNA directed RNA polymerase II polypeptide B	902					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|protein binding|ribonucleoside binding			ovary(2)	2	Glioma(25;0.08)|all_neural(26;0.181)					GCGAGACGGGCATTGTGGATC	0.388													28	94					0	0	0.006320	0	0	
CENPC1	1060	broad.mit.edu	37	4	68380247	68380247	+	Missense_Mutation	SNP	C	T	T	rs139483291	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:68380247C>T	uc003hdd.1	-	8	1172	c.989G>A	c.(988-990)CGC>CAC	p.R330H	CENPC1_uc010ihj.1_RNA|CENPC1_uc010ihk.1_RNA|CENPC1_uc010ihm.1_Missense_Mutation_p.R330H	NM_001812	NP_001803	Q03188	CENPC_HUMAN	centromere protein C 1	330					mitotic prometaphase	condensed chromosome kinetochore|condensed nuclear chromosome, centromeric region|cytosol	DNA binding			urinary_tract(1)|lung(1)	2						GGATATTGTGCGTTGTTTCAG	0.388													4	26					0	0	0.009096	0	0	
YTHDC1	91746	broad.mit.edu	37	4	69180004	69180004	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:69180004C>T	uc003hdx.2	-	17	2350	c.1997G>A	c.(1996-1998)CGC>CAC	p.R666H	YTHDC1_uc003hdy.2_Missense_Mutation_p.R648H	NM_001031732	NP_001026902	Q96MU7	YTDC1_HUMAN	splicing factor YT521-B isoform 1	666	Arg-rich.									upper_aerodigestive_tract(1)|ovary(1)	2						AGCTTGTGTGCGACGAAGGAA	0.308													9	31					0	0	0.008291	0	0	
UGT2B15	7366	broad.mit.edu	37	4	69512908	69512908	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:69512908C>T	uc011cal.1	-	6	1545	c.1507G>A	c.(1507-1509)GCA>ACA	p.A503T		NM_001076	NP_001067	P54855	UDB15_HUMAN	UDP glycosyltransferase 2B15 precursor	503	Helical; (Potential).				steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity				0						ATCACAGTTGCCACGCAGGCC	0.448													41	108					0	0	0.002852	0	0	
UGT2B28	54490	broad.mit.edu	37	4	70146222	70146222	+	Missense_Mutation	SNP	G	T	T	rs142644303	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:70146222G>T	uc003hej.2	+	1	6	c.4G>T	c.(4-6)GCT>TCT	p.A2S	UGT2B28_uc010ihr.2_Missense_Mutation_p.A2S	NM_053039	NP_444267	Q9BY64	UDB28_HUMAN	UDP glucuronosyltransferase 2 family,	2					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(1)	1					Flunitrazepam(DB01544)	CACCAGGATGGCTCTGAAGTG	0.408													13	219					4.93089e-13	5.34777e-13	0.002450	1	0	
UGT2B4	7363	broad.mit.edu	37	4	70351060	70351060	+	Silent	SNP	G	A	A	rs138447267	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:70351060G>A	uc003hek.3	-	5	1223	c.1176C>T	c.(1174-1176)GGC>GGT	p.G392G	UGT2B4_uc011cap.1_Silent_p.G256G|UGT2B4_uc003hel.3_Intron	NM_021139	NP_066962	P06133	UD2B4_HUMAN	UDP glucuronosyltransferase 2B4 precursor	392					estrogen catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(2)	2						ACAATGGAACGCCCACCATAG	0.458													48	143					0	0	0.003610	0	0	
UGT2B4	7363	broad.mit.edu	37	4	70360986	70360986	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:70360986C>T	uc003hek.3	-	1	641	c.594G>A	c.(592-594)ATG>ATA	p.M198I	UGT2B4_uc011cap.1_Missense_Mutation_p.M62I|UGT2B4_uc003hel.3_Missense_Mutation_p.M198I	NM_021139	NP_066962	P06133	UD2B4_HUMAN	UDP glucuronosyltransferase 2B4 precursor	198					estrogen catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(2)	2						TTAGTTCTGACATAACAACAG	0.388													30	92					0	0	0.002836	0	0	
GC	2638	broad.mit.edu	37	4	72631188	72631188	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:72631188C>T	uc003hge.2	-	4	587	c.434G>A	c.(433-435)TGT>TAT	p.C145Y	GC_uc003hgd.2_Missense_Mutation_p.C23Y|GC_uc010iie.2_Missense_Mutation_p.C145Y|GC_uc010iif.2_Missense_Mutation_p.C164Y	NM_000583	NP_000574	P02774	VTDB_HUMAN	vitamin D-binding protein precursor	145	Albumin 1.				hormone biosynthetic process|vitamin D metabolic process	cytosol|lysosomal lumen	actin binding|vitamin D binding|vitamin transporter activity			ovary(2)|upper_aerodigestive_tract(1)	3		all_hematologic(202;0.107)	Lung(101;0.148)		Cholecalciferol(DB00169)	GAACGCCTCACAGATTTCATC	0.413													30	98					0	0	0.002096	0	0	
NPFFR2	10886	broad.mit.edu	37	4	72994441	72994441	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:72994441G>A	uc003hgg.2	+	2	537	c.439G>A	c.(439-441)GCA>ACA	p.A147T	NPFFR2_uc010iig.1_Intron|NPFFR2_uc003hgi.2_Missense_Mutation_p.A48T|NPFFR2_uc003hgh.2_Missense_Mutation_p.A45T	NM_004885	NP_004876	Q9Y5X5	NPFF2_HUMAN	neuropeptide FF receptor 2 isoform 1	147	Extracellular (Potential).				detection of abiotic stimulus	actin cytoskeleton|integral to plasma membrane	neuropeptide receptor activity			ovary(2)|central_nervous_system(1)	3			Lung(101;0.0935)|LUSC - Lung squamous cell carcinoma(112;0.138)			GCCTCAAGTGGCAGCAATCTT	0.373													21	68					0	0	0.003330	0	0	
ANKRD17	26057	broad.mit.edu	37	4	73963907	73963907	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:73963907C>A	uc003hgp.2	-	26	5021	c.4904G>T	c.(4903-4905)AGT>ATT	p.S1635I	ANKRD17_uc003hgo.2_Missense_Mutation_p.S1522I|ANKRD17_uc003hgq.2_Missense_Mutation_p.S1384I|ANKRD17_uc003hgr.2_Missense_Mutation_p.S1634I	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	1635	Ser-rich.				interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			ATGATTGTCACTCTTACGACT	0.463													4	143					3.59834e-05	3.78692e-05	0.001168	1	0	
ANKRD17	26057	broad.mit.edu	37	4	74017203	74017203	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:74017203C>T	uc003hgp.2	-	7	1390	c.1273G>A	c.(1273-1275)GCG>ACG	p.A425T	ANKRD17_uc003hgo.2_Missense_Mutation_p.A312T|ANKRD17_uc003hgq.2_Missense_Mutation_p.A425T|ANKRD17_uc003hgr.2_Missense_Mutation_p.A425T|ANKRD17_uc011cbd.1_Missense_Mutation_p.A54T	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	425	ANK 6.				interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			TCTTGATCCGCGCCTGCTTCC	0.323													7	37					0	0	0.004482	0	0	
AFP	174	broad.mit.edu	37	4	74318231	74318231	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:74318231C>T	uc003hgz.1	+	12	1589	c.1542C>T	c.(1540-1542)AGC>AGT	p.S514S	AFP_uc003hha.1_Silent_p.S514S|AFP_uc011cbg.1_Silent_p.S288S	NM_001134	NP_001125	P02771	FETA_HUMAN	alpha-fetoprotein precursor	514	Albumin 3.				transport		metal ion binding			ovary(1)	1	Breast(15;0.00102)		Epithelial(6;2.42e-05)|all cancers(17;0.000268)|OV - Ovarian serous cystadenocarcinoma(6;0.000324)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			GCTTCAGCAGCTTGGTGGTGG	0.478									Alpha-Fetoprotein_Hereditary_Persistence_of				15	65					0	0	0.004990	0	0	
SHROOM3	57619	broad.mit.edu	37	4	77659960	77659960	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:77659960C>T	uc011cbx.1	+	5	1587	c.634C>T	c.(634-636)CGG>TGG	p.R212W	SHROOM3_uc011cbz.1_Missense_Mutation_p.R36W|SHROOM3_uc003hkf.1_Missense_Mutation_p.R87W|SHROOM3_uc003hkg.2_5'UTR	NM_020859	NP_065910	Q8TF72	SHRM3_HUMAN	shroom family member 3 protein	212					apical protein localization|cell morphogenesis|cellular pigment accumulation|pattern specification process|regulation of cell shape	adherens junction|apical junction complex|apical plasma membrane|cytoplasm|microtubule	actin binding			skin(2)|ovary(1)	3			Lung(101;0.0903)			TTATCTAAGGCGGAGCCCTGA	0.552													19	56					0	0	0.010504	0	0	
CNOT6L	246175	broad.mit.edu	37	4	78652648	78652648	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:78652648G>A	uc011ccd.1	-	9	1048	c.917C>T	c.(916-918)GCG>GTG	p.A306V	CNOT6L_uc003hks.2_Missense_Mutation_p.A306V|CNOT6L_uc003hkt.1_Missense_Mutation_p.A149V	NM_144571	NP_653172	Q96LI5	CNO6L_HUMAN	CCR4-NOT transcription complex, subunit 6-like	306					nuclear-transcribed mRNA poly(A) tail shortening	cytosol	exonuclease activity|protein binding			large_intestine(1)	1						ATTAGCCATCGCCACTTGGTT	0.368													16	46					0	0	0.008871	0	0	
FRAS1	80144	broad.mit.edu	37	4	79188442	79188442	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:79188442G>A	uc003hlb.2	+	9	1277	c.837G>A	c.(835-837)GTG>GTA	p.V279V	FRAS1_uc003hkw.2_Silent_p.V279V|FRAS1_uc003hky.1_5'UTR|FRAS1_uc003hkz.2_5'UTR	NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	279	VWFC 4.|Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						AGGAATGTGTGTCTCCTGCCG	0.582													7	22					0	0	0.001984	0	0	
BMP2K	55589	broad.mit.edu	37	4	79791958	79791958	+	Missense_Mutation	SNP	G	A	A	rs142887199	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:79791958G>A	uc003hlk.2	+	11	1419	c.1253G>A	c.(1252-1254)GGC>GAC	p.G418D	BMP2K_uc010ijl.1_RNA|BMP2K_uc003hlj.2_Missense_Mutation_p.G418D|BMP2K_uc003hll.2_5'Flank	NM_198892	NP_942595	Q9NSY1	BMP2K_HUMAN	BMP-2 inducible kinase isoform a	418						nucleus	ATP binding|protein serine/threonine kinase activity			lung(1)	1						CCTGGAAATGGCCCTGAAATT	0.438													4	33					0	0	0.009096	0	0	
PAQR3	152559	broad.mit.edu	37	4	79841732	79841732	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:79841732T>C	uc003hlp.1	-	6	1101	c.897A>G	c.(895-897)AGA>AGG	p.R299R	PAQR3_uc003hlm.2_RNA|PAQR3_uc003hln.2_RNA|PAQR3_uc003hlq.1_Silent_p.R181R	NM_001040202	NP_001035292	Q6TCH7	PAQR3_HUMAN	progestin and adipoQ receptor family member III	299	Lumenal (Potential).|Golgi targeting.					Golgi membrane|integral to membrane	receptor activity				0						GCTTGCTATGTCTGTACTGCA	0.398													26	74					0	0	0.006320	0	0	
ANTXR2	118429	broad.mit.edu	37	4	80906003	80906003	+	Silent	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:80906003A>T	uc003hlz.3	-	13	1819	c.1056T>A	c.(1054-1056)CCT>CCA	p.P352P	ANTXR2_uc003hly.3_Silent_p.P352P|ANTXR2_uc003hlx.1_RNA|ANTXR2_uc010ijn.2_Silent_p.P249P	NM_001145794	NP_001139266	P58335	ANTR2_HUMAN	anthrax toxin receptor 2 isoform 2	352	Poly-Pro.|Cytoplasmic (Potential).					endoplasmic reticulum membrane|extracellular region|integral to membrane|plasma membrane	metal ion binding|protein binding|receptor activity			ovary(1)	1						GTGGTGGTGGAGGATCCTTAA	0.343									Juvenile_Hyaline_Fibromatosis				6	12					0	0	0.001168	0	0	
HNRPDL	9987	broad.mit.edu	37	4	83350541	83350541	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:83350541A>G	uc003hmr.2	-	1	838	c.303T>C	c.(301-303)GCT>GCC	p.A101A	ENOPH1_uc003hmv.2_5'Flank|ENOPH1_uc003hmw.2_5'Flank|ENOPH1_uc003hmx.2_5'Flank|HNRPDL_uc003hmq.2_RNA|HNRPDL_uc003hms.2_RNA|HNRPDL_uc003hmt.2_Silent_p.A101A	NM_031372	NP_112740	O14979	HNRDL_HUMAN	heterogeneous nuclear ribonucleoprotein D-like	101					regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	cytoplasm|heterogeneous nuclear ribonucleoprotein complex	double-stranded DNA binding|nucleotide binding|poly(A) RNA binding|protein binding|single-stranded DNA binding			skin(1)	1		Hepatocellular(203;0.114)				TCGCGGCAGCAGCGGCGGCGG	0.637													13	39					0	0	0.001368	0	0	
ENOPH1	58478	broad.mit.edu	37	4	83381193	83381193	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:83381193G>A	uc003hmv.2	+	6	963	c.706G>A	c.(706-708)GCA>ACA	p.A236T	ENOPH1_uc003hmw.2_Missense_Mutation_p.A148T|ENOPH1_uc003hmx.2_Missense_Mutation_p.A90T	NM_021204	NP_067027	Q9UHY7	ENOPH_HUMAN	enolase-phosphatase 1	236					L-methionine salvage from methylthioadenosine	cytoplasm|nucleus	2,3-diketo-5-methylthiopentyl-1-phosphate enolase activity|2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate phosphatase activity|acireductone synthase activity|magnesium ion binding|phosphoglycolate phosphatase activity				0						ACCAGGCAACGCAGGATTAAC	0.478													7	60					0	0	0.004482	0	0	
SCD5	79966	broad.mit.edu	37	4	83719512	83719512	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:83719512G>A	uc003hna.2	-	1	499	c.179C>T	c.(178-180)GCC>GTC	p.A60V	SCD5_uc003hnb.3_Missense_Mutation_p.A60V|SCD5_uc003hnc.2_Missense_Mutation_p.A60V	NM_001037582	NP_001032671	Q86SK9	SCD5_HUMAN	stearoyl-CoA desaturase 5 isoform a	60	Helical; (Potential).				fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	iron ion binding|stearoyl-CoA 9-desaturase activity			ovary(1)	1		Colorectal(4;0.0323)|Hepatocellular(203;0.115)				GGAGTACACGGCCCCCAAGTG	0.522													10	20					0	0	0.000978	0	0	
THAP9	79725	broad.mit.edu	37	4	83838899	83838899	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:83838899C>T	uc003hnt.2	+	5	1653	c.1534C>T	c.(1534-1536)CGT>TGT	p.R512C	THAP9_uc003hns.1_Missense_Mutation_p.R368C|THAP9_uc003hnu.1_RNA|THAP9_uc003hnv.2_Missense_Mutation_p.R229C	NM_024672	NP_078948	Q9H5L6	THAP9_HUMAN	THAP domain containing 9	512							DNA binding|metal ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	5		Hepatocellular(203;0.114)				CCATTTTTTACGTTTAATTAA	0.363													9	165					0	0	0.004482	0	0	
WDFY3	23001	broad.mit.edu	37	4	85701365	85701365	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:85701365C>T	uc003hpd.2	-	26	4669	c.4261G>A	c.(4261-4263)GCC>ACC	p.A1421T		NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	1421						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		ACATCAGAGGCCATGGCCACC	0.493													25	67					0	0	0.003954	0	0	
WDFY3	23001	broad.mit.edu	37	4	85715780	85715780	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:85715780G>A	uc003hpd.2	-	21	3787	c.3379C>T	c.(3379-3381)CGC>TGC	p.R1127C		NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	1127						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		TTTGCTCGGCGCACAACAGTA	0.448													7	100					0	0	0.003080	0	0	
MAPK10	5602	broad.mit.edu	37	4	87022260	87022260	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:87022260C>T	uc003hpq.2	-	7	742	c.675G>A	c.(673-675)GTG>GTA	p.V225V	MAPK10_uc010ikg.2_Silent_p.V187V|MAPK10_uc003hpr.2_Silent_p.V187V|MAPK10_uc003hps.2_Silent_p.V225V|MAPK10_uc003hpt.2_Silent_p.V225V|MAPK10_uc003hpu.2_Silent_p.V225V|MAPK10_uc003hpv.2_Silent_p.V80V|MAPK10_uc003hpn.2_5'Flank|MAPK10_uc003hpo.2_Silent_p.V80V|MAPK10_uc011ccw.1_Silent_p.V111V|MAPK10_uc003hpp.2_Silent_p.V80V	NM_138982	NP_620448	P53779	MK10_HUMAN	mitogen-activated protein kinase 10 isoform 2	225	Protein kinase.				innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|regulation of sequence-specific DNA binding transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|JUN kinase activity|MAP kinase kinase activity|protein binding			stomach(1)|breast(1)|central_nervous_system(1)	3		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.243)		OV - Ovarian serous cystadenocarcinoma(123;0.002)		AATAACGTGTCACCACATATG	0.488													22	40					0	0	0.002299	0	0	
PTPN13	5783	broad.mit.edu	37	4	87622631	87622631	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:87622631A>G	uc003hpz.2	+	7	1352	c.872A>G	c.(871-873)GAT>GGT	p.D291G	PTPN13_uc003hpy.2_Missense_Mutation_p.D291G|PTPN13_uc003hqa.2_Missense_Mutation_p.D291G|PTPN13_uc003hqb.2_Missense_Mutation_p.D291G	NM_080683	NP_542414	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type	291						cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)		CCTGGCATTGATGTGCTTTCT	0.423													3	78					0	0	0.004672	0	0	
PTPN13	5783	broad.mit.edu	37	4	87726516	87726516	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:87726516C>A	uc003hpz.2	+	44	7219	c.6739C>A	c.(6739-6741)CTT>ATT	p.L2247I	PTPN13_uc003hpy.2_Missense_Mutation_p.L2252I|PTPN13_uc003hqa.2_Missense_Mutation_p.L2228I|PTPN13_uc003hqb.2_Missense_Mutation_p.L2056I|PTPN13_uc003hqc.1_Missense_Mutation_p.L613I	NM_080683	NP_542414	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type	2247	Tyrosine-protein phosphatase.					cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)		TAAAAATATACTTCCCTGTAA	0.303													4	18					2.56e-06	2.71111e-06	0.009096	1	0	
C4orf36	132989	broad.mit.edu	37	4	87808929	87808929	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:87808929G>A	uc003hqe.3	-	4	651	c.338C>T	c.(337-339)CCT>CTT	p.P113L		NM_144645	NP_653246	Q96KX1	CD036_HUMAN	hypothetical protein LOC132989	113											0		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00141)		AGATGGAAGAGGTCTTCTCAA	0.423													16	54					0	0	0.007413	0	0	
AFF1	4299	broad.mit.edu	37	4	88011180	88011180	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:88011180G>A	uc003hqj.3	+	5	1535	c.1128G>A	c.(1126-1128)ACG>ACA	p.T376T	AFF1_uc003hqh.1_Silent_p.T382T|AFF1_uc011ccy.1_Intron|AFF1_uc011ccz.1_Silent_p.T383T|AFF1_uc003hqk.3_Silent_p.T376T|AFF1_uc011cda.1_Silent_p.T14T	NM_005935	NP_005926	P51825	AFF1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	376						nucleus	sequence-specific DNA binding transcription factor activity			breast(1)	1		Acute lymphoblastic leukemia(40;0.0935)|all_hematologic(202;0.111)|Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000233)		CAATACATACGCCTAGTACAG	0.403													14	56					0	0	0.004990	0	0	
AFF1	4299	broad.mit.edu	37	4	88036259	88036259	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:88036259G>A	uc003hqj.3	+	11	2660	c.2253G>A	c.(2251-2253)CCG>CCA	p.P751P	AFF1_uc011ccz.1_Silent_p.P758P|AFF1_uc003hqk.3_Silent_p.P751P|AFF1_uc011cda.1_Silent_p.P389P	NM_005935	NP_005926	P51825	AFF1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	751						nucleus	sequence-specific DNA binding transcription factor activity			breast(1)	1		Acute lymphoblastic leukemia(40;0.0935)|all_hematologic(202;0.111)|Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000233)		TGCTCTCACCGCTCAGGGACA	0.617													6	61					0	0	0.004482	0	0	
PKD2	5311	broad.mit.edu	37	4	88986920	88986920	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:88986920C>T	uc003hre.2	+	12	2313	c.2247C>T	c.(2245-2247)GGC>GGT	p.G749G	PKD2_uc011cdf.1_Silent_p.G167G|PKD2_uc011cdg.1_Silent_p.G75G|PKD2_uc011cdh.1_5'UTR	NM_000297	NP_000288	Q13563	PKD2_HUMAN	polycystin 2	749	EF-hand domain.|Cytoplasmic (Potential).					basal cortex|basal plasma membrane|endoplasmic reticulum|integral to membrane|lamellipodium|microtubule basal body	calcium ion binding|cytoskeletal protein binding|voltage-gated chloride channel activity|voltage-gated sodium channel activity			skin(1)	1		Hepatocellular(203;0.114)|Acute lymphoblastic leukemia(40;0.221)		OV - Ovarian serous cystadenocarcinoma(123;9.98e-10)|COAD - Colon adenocarcinoma(81;0.0237)		TCAGGAAGGGCCATACTGATG	0.433													32	107					0	0	0.005524	0	0	
ABCG2	9429	broad.mit.edu	37	4	89039273	89039273	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:89039273A>C	uc003hrg.2	-	7	1322	c.829T>G	c.(829-831)TTT>GTT	p.F277V	ABCG2_uc003hrh.2_Missense_Mutation_p.F277V|ABCG2_uc003hrf.2_Missense_Mutation_p.F147V	NM_004827	NP_004818	Q9UNQ0	ABCG2_HUMAN	ATP-binding cassette, sub-family G, member 2	277	ABC transporter.|Cytoplasmic (Potential).				cellular iron ion homeostasis|urate metabolic process	integral to membrane|plasma membrane	ATP binding|heme transporter activity|protein homodimerization activity|xenobiotic-transporting ATPase activity			central_nervous_system(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;7.02e-05)	Imatinib(DB00619)|Mitoxantrone(DB01204)|Nicardipine(DB00622)|Nitrendipine(DB01054)|Rosuvastatin(DB01098)|Saquinavir(DB01232)|Topotecan(DB01030)	GCTGATTCAAAGTATCCCAAG	0.458													14	36					0	0	0.004007	0	0	
HERC6	55008	broad.mit.edu	37	4	89358921	89358921	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:89358921A>G	uc011cdi.1	+	20	2726	c.2543A>G	c.(2542-2544)GAC>GGC	p.D848G	HERC6_uc011cdj.1_Missense_Mutation_p.D812G|HERC6_uc011cdk.1_RNA|HERC6_uc011cdl.1_RNA	NM_017912	NP_060382	Q8IVU3	HERC6_HUMAN	hect domain and RLD 6 isoform 1	848	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytosol	ubiquitin-protein ligase activity			lung(3)|ovary(1)|kidney(1)	5		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000222)		ATACCTGTGGACCAAACCAAC	0.303													5	11					0	0	0.001984	0	0	
GPRIN3	285513	broad.mit.edu	37	4	90170134	90170134	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:90170134C>T	uc003hsm.1	-	2	1647	c.1128G>A	c.(1126-1128)ACG>ACA	p.T376T		NM_198281	NP_938022	Q6ZVF9	GRIN3_HUMAN	G protein-regulated inducer of neurite outgrowth	376										ovary(3)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;5.67e-05)		GGGGGGCTAGCGTGCTGTCAG	0.557													11	28					0	0	0.001855	0	0	
PDLIM5	10611	broad.mit.edu	37	4	95578591	95578591	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:95578591C>T	uc003hti.2	+	11	1629	c.1478C>T	c.(1477-1479)GCG>GTG	p.A493V	PDLIM5_uc011cdx.1_Missense_Mutation_p.A390V|PDLIM5_uc003hth.2_Missense_Mutation_p.A384V|PDLIM5_uc003htj.2_Missense_Mutation_p.A168V|PDLIM5_uc003htk.2_Missense_Mutation_p.A522V|PDLIM5_uc011cdy.1_Missense_Mutation_p.A371V|PDLIM5_uc003htl.2_Missense_Mutation_p.A168V	NM_006457	NP_006448	Q96HC4	PDLI5_HUMAN	PDZ and LIM domain 5 isoform a	493	LIM zinc-binding 2.				regulation of dendritic spine morphogenesis|regulation of synaptogenesis	actin cytoskeleton|cell junction|cytosol|postsynaptic density|postsynaptic membrane|synaptosome	actin binding|actinin binding|protein kinase C binding|zinc ion binding			ovary(1)|skin(1)	2		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.84e-09)		GTCATCAGTGCGTTGAAACAA	0.373													17	57					0	0	0.010504	0	0	
TSPAN5	10098	broad.mit.edu	37	4	99399869	99399869	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:99399869G>A	uc003hub.2	-	5	893	c.543C>T	c.(541-543)GGC>GGT	p.G181G	TSPAN5_uc011cdz.1_Silent_p.G110G	NM_005723	NP_005714	P62079	TSN5_HUMAN	transmembrane 4 superfamily member 9	181	Extracellular (Potential).					integral to membrane					0				OV - Ovarian serous cystadenocarcinoma(123;1.89e-07)		AGAATGGAACGCCACATCGCT	0.493													31	61					0	0	0.002096	0	0	
TSPAN5	10098	broad.mit.edu	37	4	99407956	99407956	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:99407956A>G	uc003hub.2	-	3	562	c.212T>C	c.(211-213)GTG>GCG	p.V71A	TSPAN5_uc011cdz.1_5'UTR	NM_005723	NP_005714	P62079	TSN5_HUMAN	transmembrane 4 superfamily member 9	71	Helical; (Potential).					integral to membrane					0				OV - Ovarian serous cystadenocarcinoma(123;1.89e-07)		AATGAACATCACTCCTCCCAC	0.483													29	104					0	0	0.007291	0	0	
METAP1	23173	broad.mit.edu	37	4	99960602	99960602	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:99960602C>T	uc003huf.3	+	5	535	c.418C>T	c.(418-420)CGA>TGA	p.R140*	METAP1_uc003hug.2_RNA	NM_015143	NP_055958	P53582	AMPM1_HUMAN	methionyl aminopeptidase 1	140					N-terminal protein amino acid modification|peptidyl-methionine modification|proteolysis|regulation of translation	cytoplasm	aminopeptidase activity|metal ion binding|metalloexopeptidase activity|protein binding				0				OV - Ovarian serous cystadenocarcinoma(123;3.12e-07)		AGAAGGGATGCGACTTGTATG	0.363													23	86					0	0	0.002780	0	0	
ADH1C	126	broad.mit.edu	37	4	100261758	100261758	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:100261758C>T	uc003huu.2	-	9	1023	c.938G>A	c.(937-939)CGC>CAC	p.R313H		NM_000669	NP_000660	P00326	ADH1G_HUMAN	class I alcohol dehydrogenase, gamma subunit	313					ethanol oxidation|xenobiotic metabolic process	cytosol	alcohol dehydrogenase (NAD) activity|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(123;1.08e-07)	Fomepizole(DB01213)|NADH(DB00157)	TTTCCACGTGCGTCCAGTCAG	0.443									Naso-/Oropharyngeal/Laryngeal_Cancer_Familial_Clustering_of				68	189					0	0	0.003610	0	0	
MTTP	4547	broad.mit.edu	37	4	100529984	100529984	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:100529984G>A	uc003hvc.3	+	13	1875	c.1619G>A	c.(1618-1620)CGC>CAC	p.R540H	MTTP_uc011cej.1_Missense_Mutation_p.R567H	NM_000253	NP_000244	P55157	MTP_HUMAN	microsomal triglyceride transfer protein large	540	Vitellogenin.		R -> H (in ABL; loss of activity).	R->K: No change of activity.	lipid metabolic process|lipoprotein metabolic process	endoplasmic reticulum lumen	lipid binding|lipid transporter activity			ovary(3)|central_nervous_system(1)	4				OV - Ovarian serous cystadenocarcinoma(123;6.04e-09)	Hesperetin(DB01094)	AAGACTGTGCGCACTGCTGCA	0.393													35	73					0	0	0.005524	0	0	
PPP3CA	5530	broad.mit.edu	37	4	101947170	101947170	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:101947170G>T	uc011cen.1	-	14	2093	c.1418C>A	c.(1417-1419)GCC>GAC	p.A473D	PPP3CA_uc003hvu.2_Missense_Mutation_p.A463D|PPP3CA_uc010ilj.2_Missense_Mutation_p.A421D|PPP3CA_uc003hvt.2_Missense_Mutation_p.A450D|PPP3CA_uc003hvs.2_Missense_Mutation_p.A406D|PPP3CA_uc010ilk.2_Missense_Mutation_p.A241D	NM_000944	NP_000935	Q08209	PP2BA_HUMAN	protein phosphatase 3, catalytic subunit, alpha	473	Inhibitory domain.				protein dephosphorylation	calcineurin complex|cytosol|nucleus	calcium ion binding|calmodulin binding			ovary(1)|skin(1)	2				OV - Ovarian serous cystadenocarcinoma(123;6.79e-08)		TAAGCCCTTGGCTTCCTCGAA	0.438													38	98					3.05275e-18	3.33928e-18	0.003214	1	0	
SLC39A8	64116	broad.mit.edu	37	4	103228683	103228683	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:103228683C>A	uc003hwb.1	-	3	991	c.462G>T	c.(460-462)AAG>AAT	p.K154N	SLC39A8_uc011ceo.1_Missense_Mutation_p.K154N|SLC39A8_uc003hwa.1_Missense_Mutation_p.K87N|SLC39A8_uc003hwc.2_Missense_Mutation_p.K154N	NM_022154	NP_071437	Q9C0K1	S39A8_HUMAN	solute carrier family 39 (zinc transporter),	154	Extracellular (Potential).					integral to membrane|organelle membrane|plasma membrane	zinc ion transmembrane transporter activity				0		Hepatocellular(203;0.217)		all cancers(1;9.78e-10)|OV - Ovarian serous cystadenocarcinoma(123;1.52e-09)|GBM - Glioblastoma multiforme(1;0.000142)		AATAAGATTTCTTTATCAGTG	0.398													81	140					2.88734e-31	3.17164e-31	0.003610	1	0	
UBE2D3	7323	broad.mit.edu	37	4	103789880	103789880	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:103789880G>T	uc003hwq.2	-	1	124	c.22C>A	c.(22-24)CTT>ATT	p.L8I	CISD2_uc003hwt.3_5'Flank|UBE2D3_uc003hwr.2_5'UTR	NM_181893	NP_871622	P61077	UB2D3_HUMAN	ubiquitin-conjugating enzyme E2D 3 isoform 3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					apoptosis|BMP signaling pathway|DNA repair|negative regulation of type I interferon production|proteasomal ubiquitin-dependent protein catabolic process|protein K11-linked ubiquitination|protein K48-linked ubiquitination|protein monoubiquitination|transforming growth factor beta receptor signaling pathway	endosome membrane|plasma membrane	ATP binding|protein binding|ubiquitin-protein ligase activity				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;2.13e-08)		acttttgaaaggcactttcgg	0.418													31	112					5.91797e-21	6.48703e-21	0.002445	1	0	
CENPE	1062	broad.mit.edu	37	4	104067167	104067167	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:104067167G>T	uc003hxb.1	-	30	4322	c.4232C>A	c.(4231-4233)CCC>CAC	p.P1411H	CENPE_uc003hxc.1_Missense_Mutation_p.P1386H	NM_001813	NP_001804	Q02224	CENPE_HUMAN	centromere protein E	1411	Potential.				blood coagulation|cell division|kinetochore assembly|microtubule-based movement|mitotic chromosome movement towards spindle pole|mitotic metaphase|mitotic metaphase plate congression|mitotic prometaphase|multicellular organismal development|positive regulation of protein kinase activity	condensed chromosome kinetochore|cytosol|microtubule|nucleus|spindle	ATP binding|kinetochore binding|microtubule motor activity			ovary(5)|breast(4)	9				OV - Ovarian serous cystadenocarcinoma(123;2.95e-08)		TGAATCTTTGGGTTTGAATTG	0.358													27	81					2.4375e-19	2.66796e-19	0.007291	1	0	
TACR3	6870	broad.mit.edu	37	4	104640294	104640294	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:104640294G>A	uc003hxe.1	-	1	682	c.539C>T	c.(538-540)GCG>GTG	p.A180V		NM_001059	NP_001050	P29371	NK3R_HUMAN	tachykinin receptor 3	180	Helical; Name=3; (Potential).					integral to plasma membrane	tachykinin receptor activity			ovary(3)|lung(2)|breast(1)|skin(1)	7		Hepatocellular(203;0.217)		UCEC - Uterine corpus endometrioid carcinoma (10;0.22)|OV - Ovarian serous cystadenocarcinoma(123;3.4e-08)		CCTGTCCACCGCAATGGCCGT	0.498													11	24					0	0	0.008871	0	0	
TACR3	6870	broad.mit.edu	37	4	104640738	104640738	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:104640738G>A	uc003hxe.1	-	1	238	c.95C>T	c.(94-96)GCG>GTG	p.A32V		NM_001059	NP_001050	P29371	NK3R_HUMAN	tachykinin receptor 3	32	Extracellular (Potential).					integral to plasma membrane	tachykinin receptor activity			ovary(3)|lung(2)|breast(1)|skin(1)	7		Hepatocellular(203;0.217)		UCEC - Uterine corpus endometrioid carcinoma (10;0.22)|OV - Ovarian serous cystadenocarcinoma(123;3.4e-08)		CCCCGTGGCCGCCCCGGCAGC	0.682													5	12					0	0	0.001984	0	0	
GSTCD	79807	broad.mit.edu	37	4	106639056	106639056	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:106639056C>T	uc003hxz.3	+	2	358	c.286C>T	c.(286-288)CGA>TGA	p.R96*	GSTCD_uc003hxx.2_Nonsense_Mutation_p.R96*|GSTCD_uc003hxy.3_Intron|GSTCD_uc011cfb.1_Intron|GSTCD_uc010ils.1_Nonsense_Mutation_p.R96*	NM_001031720	NP_001026890	Q8NEC7	GSTCD_HUMAN	glutathione S-transferase, C-terminal domain	96						cytoplasm	rRNA methyltransferase activity			breast(1)|central_nervous_system(1)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;3.15e-07)|READ - Rectum adenocarcinoma(30;0.139)		AGTAGTAGAACGATCAGACAA	0.408													9	121					0	0	0.008291	0	0	
TBCK	93627	broad.mit.edu	37	4	107154146	107154146	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:107154146G>A	uc010ilv.2	-	17	1953	c.1588C>T	c.(1588-1590)CGT>TGT	p.R530C	TBCK_uc003hyb.2_Missense_Mutation_p.R273C|TBCK_uc003hye.2_Missense_Mutation_p.R491C|TBCK_uc003hyc.2_Missense_Mutation_p.R467C|TBCK_uc003hyd.2_Missense_Mutation_p.R358C|TBCK_uc003hyf.2_Missense_Mutation_p.R530C	NM_001163435	NP_001156907	Q8TEA7	TBCK_HUMAN	TBC domain-containing protein kinase-like	530	Rab-GAP TBC.					intracellular	Rab GTPase activator activity			large_intestine(2)|upper_aerodigestive_tract(1)|stomach(1)|ovary(1)	5						TTTAATACACGCCTAAATTTT	0.368													37	98					0	0	0.004878	0	0	
CYP2U1	113612	broad.mit.edu	37	4	108871478	108871478	+	Missense_Mutation	SNP	G	A	A	rs150818323		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:108871478G>A	uc003hyp.2	+	5	1617	c.1534G>A	c.(1534-1536)GCA>ACA	p.A512T	CYP2U1_uc011cfi.1_Missense_Mutation_p.A303T	NM_183075	NP_898898	Q7Z449	CP2U1_HUMAN	cytochrome P450, family 2, subfamily U,	512	Helical; (Potential).				xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000128)		GCAGAGTTTCGCATTTGCTTT	0.398													5	79					0	0	0.000602	0	0	
AGXT2L1	64850	broad.mit.edu	37	4	109663750	109663750	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:109663750T>C	uc003hzc.2	-	13	1571	c.1390A>G	c.(1390-1392)ATA>GTA	p.I464V	AGXT2L1_uc010imc.2_Missense_Mutation_p.I458V|AGXT2L1_uc011cfm.1_Missense_Mutation_p.I424V|AGXT2L1_uc011cfn.1_Missense_Mutation_p.I391V|AGXT2L1_uc011cfo.1_Missense_Mutation_p.I406V	NM_031279	NP_112569	Q8TBG4	AT2L1_HUMAN	alanine-glyoxylate aminotransferase 2-like 1	464					cellular amino acid metabolic process	mitochondrion	alanine-glyoxylate transaminase activity|pyridoxal phosphate binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.000281)		AGCAGTTCTATGTGGGCTTCT	0.493													20	70					0	0	0.001882	0	0	
AGXT2L1	64850	broad.mit.edu	37	4	109681385	109681385	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:109681385T>C	uc003hzc.2	-	2	315	c.134A>G	c.(133-135)AAC>AGC	p.N45S	AGXT2L1_uc010imc.2_Missense_Mutation_p.N45S|AGXT2L1_uc011cfm.1_Missense_Mutation_p.N5S|AGXT2L1_uc011cfn.1_Intron|AGXT2L1_uc011cfo.1_Intron	NM_031279	NP_112569	Q8TBG4	AT2L1_HUMAN	alanine-glyoxylate aminotransferase 2-like 1	45					cellular amino acid metabolic process	mitochondrion	alanine-glyoxylate transaminase activity|pyridoxal phosphate binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.000281)		CTGTTCACCGTTCTCATCAAA	0.438													31	85					0	0	0.002445	0	0	
COL25A1	84570	broad.mit.edu	37	4	109858963	109858963	+	Splice_Site	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:109858963C>T	uc003hze.1	-	10	1239	c.708_splice	c.e10+1	p.M236_splice	COL25A1_uc003hzg.2_Splice_Site_p.M236_splice|COL25A1_uc003hzd.2_Intron|COL25A1_uc003hzf.2_Splice_Site_p.M17_splice	NM_198721	NP_942014	Q9BXS0	COPA1_HUMAN	collagen, type XXV, alpha 1 isoform 1							collagen|extracellular space	beta-amyloid binding|heparin binding			ovary(2)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000173)		GAGATACTTGCCATCAAGCCT	0.333													16	62					0	0	0.010504	0	0	
SEC24B	10427	broad.mit.edu	37	4	110442692	110442692	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:110442692C>T	uc003hzk.2	+	14	2473	c.2418C>T	c.(2416-2418)GGC>GGT	p.G806G	SEC24B_uc003hzl.2_Silent_p.G771G|SEC24B_uc011cfp.1_Silent_p.G836G|SEC24B_uc011cfq.1_Silent_p.G805G|SEC24B_uc011cfr.1_Silent_p.G770G	NM_006323	NP_006314	O95487	SC24B_HUMAN	SEC24 (S. cerevisiae) homolog B isoform a	806					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	protein binding|transporter activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;3.03e-05)		CAACAGGTGGCCGTGTGTCTG	0.433													16	33					0	0	0.004990	0	0	
CFI	3426	broad.mit.edu	37	4	110662253	110662253	+	Silent	SNP	A	C	C	rs145296508		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:110662253A>C	uc003hzr.3	-	13	1756	c.1548T>G	c.(1546-1548)GGT>GGG	p.G516G	CFI_uc003hzq.2_Silent_p.G313G|CFI_uc011cft.1_Silent_p.G524G|CFI_uc003hzs.3_Silent_p.G509G	NM_000204	NP_000195	P05156	CFAI_HUMAN	complement factor I preproprotein	516	Peptidase S1.				complement activation, classical pathway|innate immune response|proteolysis	extracellular space|membrane	scavenger receptor activity|serine-type endopeptidase activity				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000331)		CATCGATGGAACCATCATATG	0.443													5	169					0	0	0.001168	0	0	
RRH	10692	broad.mit.edu	37	4	110756589	110756589	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:110756589A>G	uc003hzv.2	+	3	399	c.365A>G	c.(364-366)GAC>GGC	p.D122G		NM_006583	NP_006574	O14718	OPSX_HUMAN	peropsin	122	Cytoplasmic.				phototransduction|protein-chromophore linkage|visual perception	integral to plasma membrane	G-protein coupled receptor activity|photoreceptor activity			ovary(1)	1		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00109)		GTGGCTGTGGACCGATACCTG	0.388													16	52					0	0	0.003954	0	0	
ENPEP	2028	broad.mit.edu	37	4	111397641	111397641	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:111397641C>T	uc003iab.3	+	1	413	c.71C>T	c.(70-72)GCG>GTG	p.A24V		NM_001977	NP_001968	Q07075	AMPE_HUMAN	glutamyl aminopeptidase	24	Helical; Signal-anchor for type II membrane protein; (Potential).				cell migration|cell proliferation|cell-cell signaling|proteolysis	integral to plasma membrane	aminopeptidase activity|metalloexopeptidase activity|zinc ion binding			skin(3)|ovary(1)|breast(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.0031)	L-Glutamic Acid(DB00142)	ATTCTCTGTGCGGTGGTGGTG	0.537													29	73					0	0	0.002836	0	0	
ENPEP	2028	broad.mit.edu	37	4	111434596	111434596	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:111434596T>C	uc003iab.3	+	7	1676	c.1334T>C	c.(1333-1335)GTA>GCA	p.V445A		NM_001977	NP_001968	Q07075	AMPE_HUMAN	glutamyl aminopeptidase	445	Extracellular (Potential).				cell migration|cell proliferation|cell-cell signaling|proteolysis	integral to plasma membrane	aminopeptidase activity|metalloexopeptidase activity|zinc ion binding			skin(3)|ovary(1)|breast(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.0031)	L-Glutamic Acid(DB00142)	CTTGAAGATGTATTACCTGTT	0.323													7	126					0	0	0.003080	0	0	
ENPEP	2028	broad.mit.edu	37	4	111470515	111470515	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:111470515G>A	uc003iab.3	+	15	2507	c.2165G>A	c.(2164-2166)GGT>GAT	p.G722D		NM_001977	NP_001968	Q07075	AMPE_HUMAN	glutamyl aminopeptidase	722	Extracellular (Potential).				cell migration|cell proliferation|cell-cell signaling|proteolysis	integral to plasma membrane	aminopeptidase activity|metalloexopeptidase activity|zinc ion binding			skin(3)|ovary(1)|breast(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.0031)	L-Glutamic Acid(DB00142)	TACTTCCAAGGTCAAGTGAAG	0.328													6	58					0	0	0.004482	0	0	
AP1AR	55435	broad.mit.edu	37	4	113174397	113174397	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:113174397G>A	uc003iaj.3	+	2	470	c.117G>A	c.(115-117)GAG>GAA	p.E39E	AP1AR_uc010imm.1_Silent_p.E39E|AP1AR_uc003iak.3_Silent_p.E39E	NM_018569	NP_061039	Q63HQ0	AP1AR_HUMAN	adaptor-related protein complex 1 associated	39					protein transport	early endosome|Golgi apparatus|late endosome|transport vesicle					0						CAAGAGGTGAGCACTTAACAA	0.333													5	55					0	0	0.000602	0	0	
ANK2	287	broad.mit.edu	37	4	114278694	114278694	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:114278694G>A	uc003ibe.3	+	38	9020	c.8920G>A	c.(8920-8922)GCA>ACA	p.A2974T	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_Missense_Mutation_p.A276T|ANK2_uc011cgb.1_Missense_Mutation_p.A2989T	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	2941					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		CGTTGTAGTGGCAAGCTCCTC	0.413													16	179					0	0	0.004990	0	0	
ANK2	287	broad.mit.edu	37	4	114278954	114278954	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:114278954A>C	uc003ibe.3	+	38	9280	c.9180A>C	c.(9178-9180)AAA>AAC	p.K3060N	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_Missense_Mutation_p.K362N|ANK2_uc011cgb.1_Missense_Mutation_p.K3075N	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	3027					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		CTCGTGTGAAAGAGGAAGAAC	0.458													27	56					0	0	0.008361	0	0	
UGT8	7368	broad.mit.edu	37	4	115544223	115544223	+	Missense_Mutation	SNP	G	A	A	rs114818124		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:115544223G>A	uc003ibs.2	+	2	709	c.187G>A	c.(187-189)GCC>ACC	p.A63T	UGT8_uc003ibt.2_Missense_Mutation_p.A63T|UGT8_uc011cge.1_RNA	NM_001128174	NP_001121646	Q16880	CGT_HUMAN	UDP-galactose-ceramide galactosyltransferase 8	63					central nervous system development|peripheral nervous system development	integral to membrane	2-hydroxyacylsphingosine 1-beta-galactosyltransferase activity|UDP-galactose:glucosylceramide beta-1,4-galactosyltransferase activity			ovary(1)|skin(1)	2		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000632)		CAGAGACATCGCCCCATCTAA	0.483													17	48					0	0	0.004007	0	0	
NDST4	64579	broad.mit.edu	37	4	115997904	115997904	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:115997904C>T	uc003ibu.2	-	2	968	c.289G>A	c.(289-291)GCT>ACT	p.A97T	NDST4_uc010imw.2_Intron	NM_022569	NP_072091	Q9H3R1	NDST4_HUMAN	heparan sulfate N-deacetylase/N-sulfotransferase	97	Lumenal (Potential).|Heparan sulfate N-deacetylase 4.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			skin(3)|ovary(1)	4		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)		TCCAAAATAGCTATGATATCT	0.433													17	50					0	0	0.007413	0	0	
C4orf31	79625	broad.mit.edu	37	4	121958554	121958554	+	Missense_Mutation	SNP	G	A	A	rs139699205	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:121958554G>A	uc003idq.1	-	4	1099	c.572C>T	c.(571-573)ACG>ATG	p.T191M		NM_024574	NP_078850	Q8TB73	CD031_HUMAN	hypothetical protein LOC79625 precursor	191											0						CAAAGTGACCGTGGTGCGCCC	0.483													8	105					0	0	0.003080	0	0	
QRFPR	84109	broad.mit.edu	37	4	122257980	122257980	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:122257980C>T	uc010inj.1	-	3	922	c.543G>A	c.(541-543)TGG>TGA	p.W181*	QRFPR_uc010ink.1_RNA|QRFPR_uc003ids.2_Nonsense_Mutation_p.W181*	NM_198179	NP_937822	Q96P65	QRFPR_HUMAN	G protein-coupled receptor 103	181	Helical; Name=4; (Potential).					plasma membrane	neuropeptide Y receptor activity				0						GTTGCACGTGCCACATGGGTG	0.418													18	259					0	0	0.010504	0	0	
QRFPR	84109	broad.mit.edu	37	4	122301573	122301573	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:122301573C>T	uc010inj.1	-	1	609	c.230G>A	c.(229-231)CGC>CAC	p.R77H	QRFPR_uc010ink.1_RNA|QRFPR_uc003ids.2_Missense_Mutation_p.R77H|QRFPR_uc010inl.1_Missense_Mutation_p.R77H	NM_198179	NP_937822	Q96P65	QRFPR_HUMAN	G protein-coupled receptor 103	77	Cytoplasmic (Potential).					plasma membrane	neuropeptide Y receptor activity				0						GGTGACGGTGCGCATGGCCTT	0.582													19	37					0	0	0.010504	0	0	
TRPC3	7222	broad.mit.edu	37	4	122846219	122846219	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:122846219G>A	uc003ieg.2	-	3	1204	c.1130C>T	c.(1129-1131)GCT>GTT	p.A377V	TRPC3_uc010inr.2_Missense_Mutation_p.A304V|TRPC3_uc003ief.2_Missense_Mutation_p.A304V|TRPC3_uc011cgl.1_Missense_Mutation_p.A41V	NM_001130698	NP_001124170	Q13507	TRPC3_HUMAN	transient receptor potential cation channel,	292	Cytoplasmic (Potential).				axon guidance|phototransduction|platelet activation	integral to plasma membrane	protein binding|store-operated calcium channel activity			ovary(2)	2						ACTTAATGAAGCTTTGTGCCT	0.443													6	118					0	0	0.004482	0	0	
TRPC3	7222	broad.mit.edu	37	4	122853627	122853627	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:122853627C>T	uc003ieg.2	-	2	860	c.786G>A	c.(784-786)CCG>CCA	p.P262P	TRPC3_uc010inr.2_Silent_p.P189P|TRPC3_uc003ief.2_Silent_p.P189P|TRPC3_uc011cgl.1_5'UTR	NM_001130698	NP_001124170	Q13507	TRPC3_HUMAN	transient receptor potential cation channel,	177	Cytoplasmic (Potential).				axon guidance|phototransduction|platelet activation	integral to plasma membrane	protein binding|store-operated calcium channel activity			ovary(2)	2						AATAGTCGTGCGGCCGCTCGA	0.602													6	23					0	0	0.001168	0	0	
KIAA1109	84162	broad.mit.edu	37	4	123140711	123140711	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:123140711C>T	uc003ieh.2	+	19	2509	c.2464C>T	c.(2464-2466)CGT>TGT	p.R822C	KIAA1109_uc003iei.1_Missense_Mutation_p.R576C|KIAA1109_uc010ins.1_Missense_Mutation_p.R166C|KIAA1109_uc003iej.1_Missense_Mutation_p.R207C	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	822					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						AGTTCATGGGCGTCTTCCTGT	0.373													21	50					0	0	0.002780	0	0	
KIAA1109	84162	broad.mit.edu	37	4	123161120	123161120	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:123161120A>G	uc003ieh.2	+	27	4328	c.4283A>G	c.(4282-4284)TAC>TGC	p.Y1428C	KIAA1109_uc003iei.1_Missense_Mutation_p.Y1181C|KIAA1109_uc010ins.1_Missense_Mutation_p.Y771C|KIAA1109_uc003iek.2_Missense_Mutation_p.Y47C	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	1428					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						CAGATTGACTACAGTAGGGGT	0.443													4	69					0	0	0.001984	0	0	
KIAA1109	84162	broad.mit.edu	37	4	123258064	123258064	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:123258064A>G	uc003ieh.2	+	69	12084	c.12039A>G	c.(12037-12039)GGA>GGG	p.G4013G	KIAA1109_uc003iem.2_Silent_p.G369G|KIAA1109_uc003ien.2_5'Flank	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	4013					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						AAGATATGGGACATTTTGAAA	0.333													5	69					0	0	0.001168	0	0	
FAT4	79633	broad.mit.edu	37	4	126237960	126237960	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:126237960G>A	uc003ifj.3	+	1	394	c.394G>A	c.(394-396)GCC>ACC	p.A132T		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	132	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CAATGACAACGCCCCCGTTTT	0.617											OREG0016317	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	10					0	0	0.001168	0	0	
FAT4	79633	broad.mit.edu	37	4	126238572	126238572	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:126238572C>T	uc003ifj.3	+	1	1006	c.1006C>T	c.(1006-1008)CGC>TGC	p.R336C		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	336	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CCTCACTGGGCGCGCCGAGGC	0.627											OREG0016317	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	25					0	0	0.000978	0	0	
FAT4	79633	broad.mit.edu	37	4	126240523	126240523	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:126240523T>C	uc003ifj.3	+	1	2957	c.2957T>C	c.(2956-2958)GTC>GCC	p.V986A		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	986	Cadherin 9.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						ACAGTTTATGTCCATGATGTA	0.438													7	65					0	0	0.004482	0	0	
FAT4	79633	broad.mit.edu	37	4	126242112	126242112	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:126242112A>G	uc003ifj.3	+	1	4546	c.4546A>G	c.(4546-4548)ACC>GCC	p.T1516A		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1516	Cadherin 14.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GAAGAACGTGACCATTTTGGT	0.418													10	158					0	0	0.001368	0	0	
FAT4	79633	broad.mit.edu	37	4	126242602	126242602	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:126242602G>A	uc003ifj.3	+	1	5036	c.5036G>A	c.(5035-5037)CGC>CAC	p.R1679H		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1679	Cadherin 16.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						ACTGTTGGACGCCTCTTTACT	0.453													30	76					0	0	0.002096	0	0	
FAT4	79633	broad.mit.edu	37	4	126369981	126369981	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:126369981G>A	uc003ifj.3	+	9	7810	c.7810G>A	c.(7810-7812)GCA>ACA	p.A2604T	FAT4_uc011cgp.1_Missense_Mutation_p.A902T|FAT4_uc003ifi.1_Missense_Mutation_p.A82T	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	2604	Extracellular (Potential).|Cadherin 25.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						ATATTATATCGCAAGTGGGAa	0.234													6	25					0	0	0.001168	0	0	
FAT4	79633	broad.mit.edu	37	4	126411605	126411605	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:126411605C>A	uc003ifj.3	+	17	13628	c.13628C>A	c.(13627-13629)CCG>CAG	p.P4543Q	FAT4_uc011cgp.1_Missense_Mutation_p.P2784Q|FAT4_uc003ifi.1_Missense_Mutation_p.P2020Q	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4543	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GAGAAGAAACCGAAGGAGAAG	0.517													12	111					5.50884e-06	5.81984e-06	0.001368	1	0	
FAT4	79633	broad.mit.edu	37	4	126412402	126412402	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:126412402G>T	uc003ifj.3	+	17	14425	c.14425G>T	c.(14425-14427)GAC>TAC	p.D4809Y	FAT4_uc011cgp.1_Missense_Mutation_p.D3050Y|FAT4_uc003ifi.1_Missense_Mutation_p.D2286Y	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4809	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CTGCAGTGCAGACCATGGGAG	0.512													6	57					2.74318e-10	2.94998e-10	0.006214	1	0	
SCLT1	132320	broad.mit.edu	37	4	129880822	129880822	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:129880822T>C	uc003igp.2	-	12	1486	c.980A>G	c.(979-981)TAT>TGT	p.Y327C	SCLT1_uc003ign.2_Translation_Start_Site|SCLT1_uc003igo.2_Translation_Start_Site|SCLT1_uc003igq.2_Intron|SCLT1_uc010iob.1_Intron	NM_144643	NP_653244	Q96NL6	SCLT1_HUMAN	sodium channel associated protein 1	327	Potential.					centrosome				ovary(3)|lung(1)|central_nervous_system(1)	5						AATAGCCTCATATCTCTCATT	0.348													12	46					0	0	0.000978	0	0	
PCDH10	57575	broad.mit.edu	37	4	134072314	134072314	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:134072314C>T	uc003iha.2	+	1	1845	c.1019C>T	c.(1018-1020)GCG>GTG	p.A340V	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.A340V	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	340	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		GCCGTGCCTGCGCACTGCAAG	0.607													21	65					0	0	0.003954	0	0	
PCDH10	57575	broad.mit.edu	37	4	134073044	134073044	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:134073044G>T	uc003iha.2	+	1	2575	c.1749G>T	c.(1747-1749)GGG>GGT	p.G583G	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Silent_p.G583G	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	583	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		GGCGCAACGGGACTCCAGCGC	0.687													5	16					0.000602214	0.000627828	0.000602	1	0	
PCDH10	57575	broad.mit.edu	37	4	134073220	134073220	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:134073220G>A	uc003iha.2	+	1	2751	c.1925G>A	c.(1924-1926)CGC>CAC	p.R642H	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.R642H	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	642	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		CGCACAGCACGCCGAGTCCCG	0.672													5	17					0	0	0.000602	0	0	
PCDH10	57575	broad.mit.edu	37	4	134073864	134073864	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:134073864G>A	uc003iha.2	+	1	3395	c.2569G>A	c.(2569-2571)GTC>ATC	p.V857I	PCDH10_uc003igz.2_Missense_Mutation_p.V857I	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	857	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		CGGGGCCATCGTCACCGGTTA	0.572													8	22					0	0	0.001368	0	0	
PCDH18	54510	broad.mit.edu	37	4	138452423	138452423	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:138452423C>T	uc003ihe.3	-	1	1207	c.820G>A	c.(820-822)GAT>AAT	p.D274N	PCDH18_uc003ihf.3_Missense_Mutation_p.D267N|PCDH18_uc011cgz.1_Intron|PCDH18_uc003ihg.3_Missense_Mutation_p.D54N|PCDH18_uc011cha.1_Intron	NM_019035	NP_061908	Q9HCL0	PCD18_HUMAN	protocadherin 18 precursor	274	Cadherin 3.|Extracellular (Potential).				brain development|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			pancreas(3)|skin(2)	5	all_hematologic(180;0.24)					GCGCCCTCATCTGGATCCGTG	0.408													6	65					0	0	0.003080	0	0	
NAA15	80155	broad.mit.edu	37	4	140262203	140262203	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:140262203C>T	uc003ihu.1	+	4	638	c.382C>T	c.(382-384)CGA>TGA	p.R128*		NM_057175	NP_476516	Q9BXJ9	NAA15_HUMAN	NMDA receptor regulated 1	128					angiogenesis|cell differentiation|N-terminal protein amino acid acetylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|transcription factor complex	protein binding			ovary(1)|skin(1)	2						GATTCAAATGCGAGATCTTGA	0.318													8	91					0	0	0.008291	0	0	
NAA15	80155	broad.mit.edu	37	4	140264015	140264015	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:140264015G>A	uc003ihu.1	+	5	694	c.438G>A	c.(436-438)GCG>GCA	p.A146A		NM_057175	NP_476516	Q9BXJ9	NAA15_HUMAN	NMDA receptor regulated 1	146					angiogenesis|cell differentiation|N-terminal protein amino acid acetylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|transcription factor complex	protein binding			ovary(1)|skin(1)	2						TTCGACCTGCGCAGAGAGCAT	0.348													7	123					0	0	0.003080	0	0	
MAML3	55534	broad.mit.edu	37	4	140640939	140640939	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:140640939G>A	uc003ihz.1	-	7	3692	c.2940C>T	c.(2938-2940)GGC>GGT	p.G980G	MGST2_uc010ioi.1_Intron|MAML3_uc011chd.1_Silent_p.G448G	NM_018717	NP_061187	Q96JK9	MAML3_HUMAN	mastermind-like 3	981					Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity			ovary(1)	1	all_hematologic(180;0.162)					GGTAGCTGGCGCCATTGTTGA	0.567													4	26					0	0	0.009096	0	0	
RNF150	57484	broad.mit.edu	37	4	141888992	141888992	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:141888992G>A	uc003iio.1	-	2	1174	c.520C>T	c.(520-522)CCA>TCA	p.P174S	RNF150_uc010iok.1_Missense_Mutation_p.P174S|RNF150_uc003iip.1_Missense_Mutation_p.P174S	NM_020724	NP_065775	Q9ULK6	RN150_HUMAN	ring finger protein 150 precursor	174	Extracellular (Potential).|PA.					integral to membrane	zinc ion binding			ovary(1)	1	all_hematologic(180;0.162)					TTCCCTTTTGGCTCAGGAATC	0.488													6	97					0	0	0.001168	0	0	
GAB1	2549	broad.mit.edu	37	4	144359168	144359168	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:144359168G>A	uc003ije.2	+	4	969	c.610G>A	c.(610-612)GCA>ACA	p.A204T	GAB1_uc003ijd.2_Missense_Mutation_p.A204T|GAB1_uc011chq.1_Missense_Mutation_p.A101T	NM_002039	NP_002030	Q13480	GAB1_HUMAN	GRB2-associated binding protein 1 isoform b	204				A -> G (in Ref. 1; AAC50380).	cell proliferation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway	cytosol	SH3/SH2 adaptor activity			breast(2)|lung(1)|skin(1)	4	all_hematologic(180;0.158)					TGCTGATTCTGCAAAATCCAC	0.353													18	50					0	0	0.008871	0	0	
GYPE	2996	broad.mit.edu	37	4	144826671	144826671	+	Translation_Start_Site	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:144826671C>T	uc003ijj.2	-	1	46	c.-10G>A	c.(-12--8)TCGTG>TCATG		GYPE_uc010ion.2_RNA|GYPE_uc003ijk.3_Translation_Start_Site	NM_198682	NP_941391	P15421	GLPE_HUMAN	glycophorin E precursor							integral to plasma membrane					0	all_hematologic(180;0.158)					CCTGAGATCACGAGCTGGCTC	0.398													5	83					0	0	0.000602	0	0	
HHIP	64399	broad.mit.edu	37	4	145659003	145659003	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:145659003G>A	uc003ijs.1	+	13	2652	c.1997G>A	c.(1996-1998)TGT>TAT	p.C666Y		NM_022475	NP_071920	Q96QV1	HHIP_HUMAN	hedgehog-interacting protein precursor	666	EGF-like 2.					cytoplasm|extracellular region	catalytic activity|protein binding|zinc ion binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0185)		GGTCCTCAATGTGAACAAGTG	0.438													7	84					0	0	0.004482	0	0	
OTUD4	54726	broad.mit.edu	37	4	146071750	146071750	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:146071750A>G	uc003ika.3	-	13	1117	c.979T>C	c.(979-981)TTC>CTC	p.F327L	OTUD4_uc003ijz.3_Missense_Mutation_p.F326L	NM_001102653	NP_001096123	Q01804	OTUD4_HUMAN	OTU domain containing 4 protein isoform 3	391							protein binding			ovary(2)|breast(1)	3	all_hematologic(180;0.151)					TGACTAGAGAACGCATGTTGT	0.458													4	87					0	0	0.000602	0	0	
SMAD1	4086	broad.mit.edu	37	4	146461063	146461063	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:146461063G>A	uc003ikc.2	+	3	924	c.508G>A	c.(508-510)GCC>ACC	p.A170T	SMAD1_uc003ikd.2_Missense_Mutation_p.A170T|SMAD1_uc010iov.2_Missense_Mutation_p.A170T|SMAD1_uc011cic.1_Missense_Mutation_p.A170T|SMAD1_uc003ikf.2_RNA	NM_005900	NP_005891	Q15797	SMAD1_HUMAN	Sma- and Mad-related protein 1	170					BMP signaling pathway|embryonic pattern specification|primary miRNA processing|SMAD protein complex assembly|transforming growth factor beta receptor signaling pathway	cytosol|integral to membrane|nuclear inner membrane	co-SMAD binding|I-SMAD binding|identical protein binding|protein kinase binding|sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity			ovary(1)	1	all_hematologic(180;0.151)					GCCACTCAACGCCACTTTTCC	0.507													15	47					0	0	0.002450	0	0	
POU4F2	5458	broad.mit.edu	37	4	147561859	147561859	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:147561859G>A	uc003ikv.2	+	2	1377	c.1129G>A	c.(1129-1131)GCC>ACC	p.A377T		NM_004575	NP_004566	Q12837	PO4F2_HUMAN	Brn3b POU domain transcription factor	377	Homeobox.				estrogen receptor signaling pathway|MAPKKK cascade|negative regulation of transcription from RNA polymerase II promoter	nuclear speck	RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription			breast(1)	1	all_hematologic(180;0.151)					AAAGATCGCCGCCATCGCGGA	0.557													5	43					0	0	0.001984	0	0	
NR3C2	4306	broad.mit.edu	37	4	149075716	149075716	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:149075716G>A	uc003ilj.3	-	5	2685	c.2351C>T	c.(2350-2352)GCA>GTA	p.A784V	NR3C2_uc003ilk.3_Intron|NR3C2_uc010iph.2_Intron	NM_000901	NP_000892	P08235	MCR_HUMAN	nuclear receptor subfamily 3, group C, member 2	784	Important for coactivator binding.|Steroid-binding.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	endoplasmic reticulum membrane|nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			large_intestine(1)	1	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0614)	Desoxycorticosterone Pivalate(DB01134)|Eplerenone(DB00700)|Fludrocortisone(DB00687)|Spironolactone(DB00421)	AAGTACCTTTGCCCACTTCAC	0.507													39	103					0	0	0.007835	0	0	
LRBA	987	broad.mit.edu	37	4	151336636	151336636	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:151336636G>A	uc010ipj.2	-	48	7655	c.7181C>T	c.(7180-7182)CCT>CTT	p.P2394L	LRBA_uc010ipi.2_Intron|LRBA_uc003ils.3_Missense_Mutation_p.P284L|LRBA_uc003ilt.3_Missense_Mutation_p.P1042L|LRBA_uc003ilu.3_Missense_Mutation_p.P2383L	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	2394	BEACH.					endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					GGCCCAAGGAGGAAGTTCGAC	0.373													6	52					0	0	0.001984	0	0	
MAB21L2	10586	broad.mit.edu	37	4	151504900	151504900	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:151504900G>A	uc003ilw.2	+	1	1824	c.719G>A	c.(718-720)CGC>CAC	p.R240H	LRBA_uc003ils.3_5'Flank|LRBA_uc003ilt.3_Intron|LRBA_uc003ilu.3_Intron|LRBA_uc010ipj.2_Intron	NM_006439	NP_006430	Q9Y586	MB212_HUMAN	mab-21-like protein 2	240					nervous system development	nucleus				ovary(1)	1	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.159)		GCGGAGAACCGCCTGCTGATG	0.637													6	12					0	0	0.001984	0	0	
PET112L	5188	broad.mit.edu	37	4	152679946	152679946	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:152679946G>A	uc003iml.2	-	2	317	c.305C>T	c.(304-306)GCA>GTA	p.A102V	PET112L_uc003imm.3_Missense_Mutation_p.A102V	NM_004564	NP_004555	O75879	GATB_HUMAN	PET112-like precursor	102						mitochondrion	ATP binding|carbon-nitrogen ligase activity, with glutamine as amido-N-donor|translation factor activity, nucleic acid binding				0	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.138)			L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	AGGTAGAGATGCATCAAAAAA	0.323													61	153					0	0	0.003610	0	0	
PET112L	5188	broad.mit.edu	37	4	152682034	152682034	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:152682034G>A	uc003iml.2	-	1	113	c.101C>T	c.(100-102)TCC>TTC	p.S34F	PET112L_uc003imm.3_Missense_Mutation_p.S34F	NM_004564	NP_004555	O75879	GATB_HUMAN	PET112-like precursor	34						mitochondrion	ATP binding|carbon-nitrogen ligase activity, with glutamine as amido-N-donor|translation factor activity, nucleic acid binding				0	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.138)			L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	GTTGGATGTGGACCCAGTCGG	0.612													9	24					0	0	0.008291	0	0	
TRIM2	23321	broad.mit.edu	37	4	154215584	154215584	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:154215584C>T	uc003ing.2	+	5	853	c.652C>T	c.(652-654)CGC>TGC	p.R218C	TRIM2_uc003inh.2_Missense_Mutation_p.R245C	NM_001130067	NP_001123539	Q9C040	TRIM2_HUMAN	tripartite motif-containing 2 isoform 2	218						cytoplasm	zinc ion binding			central_nervous_system(1)	1	all_hematologic(180;0.093)	Medulloblastoma(177;0.00225)		GBM - Glioblastoma multiforme(119;0.0102)|LUSC - Lung squamous cell carcinoma(193;0.0703)		TTTAAATGTGCGCAAGAGTGT	0.423													6	86					0	0	0.001984	0	0	
PLRG1	5356	broad.mit.edu	37	4	155460278	155460278	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:155460278G>T	uc003iny.2	-	12	1193	c.1130C>A	c.(1129-1131)GCT>GAT	p.A377D	PLRG1_uc003inz.2_Missense_Mutation_p.A368D	NM_002669	NP_002660	O43660	PLRG1_HUMAN	pleiotropic regulator 1 (PRL1 homolog,	377	WD 5.					catalytic step 2 spliceosome|nuclear speck	protein binding|signal transducer activity|transcription corepressor activity				0	all_hematologic(180;0.215)	Renal(120;0.0854)				TAAAACCACAGCCCTAACTGA	0.363													14	73					9.31168e-06	9.82941e-06	0.001855	1	0	
LRAT	9227	broad.mit.edu	37	4	155665742	155665742	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:155665742G>A	uc003iom.1	+	1	591	c.264G>A	c.(262-264)ACG>ACA	p.T88T	uc003iol.2_Intron|LRAT_uc003ion.1_Silent_p.T88T	NM_004744	NP_004735	O95237	LRAT_HUMAN	lecithin retinol acyltransferase	88	Cytoplasmic (By similarity).				response to stimulus|retinoid metabolic process|steroid metabolic process|visual perception	endoplasmic reticulum membrane|integral to membrane|multivesicular body|perinuclear region of cytoplasm|rough endoplasmic reticulum	phosphatidylcholine-retinol O-acyltransferase activity			central_nervous_system(1)	1	all_hematologic(180;0.215)	Renal(120;0.0458)			Vitamin A(DB00162)	TGGGGCGCACGCAGAAGGTGG	0.582													7	13					0	0	0.001984	0	0	
GUCY1A3	2982	broad.mit.edu	37	4	156618218	156618218	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:156618218A>C	uc003iov.2	+	4	735	c.199A>C	c.(199-201)AGC>CGC	p.S67R	GUCY1A3_uc003iou.2_Missense_Mutation_p.S67R|GUCY1A3_uc010iqc.2_Missense_Mutation_p.S67R|GUCY1A3_uc003iow.2_Missense_Mutation_p.S67R|GUCY1A3_uc010iqd.2_Missense_Mutation_p.S67R|GUCY1A3_uc003iox.2_Missense_Mutation_p.S67R|GUCY1A3_uc003ioz.2_5'UTR|GUCY1A3_uc003ioy.2_Missense_Mutation_p.S67R|GUCY1A3_uc010iqe.2_5'UTR|GUCY1A3_uc003ipa.2_RNA|GUCY1A3_uc003ipb.2_Missense_Mutation_p.S67R	NM_000856	NP_000847	Q02108	GCYA3_HUMAN	guanylate cyclase 1, soluble, alpha 3 isoform A	67					blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble	GTP binding|guanylate cyclase activity|heme binding|receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.17)		AACCAGTCGGAGCCGAGTCTA	0.428													8	90					0	0	0.003080	0	0	
GRIA2	2891	broad.mit.edu	37	4	158254497	158254497	+	Missense_Mutation	SNP	C	T	T	rs143357227		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:158254497C>T	uc003ipm.3	+	8	1606	c.1147C>T	c.(1147-1149)CCC>TCC	p.P383S	GRIA2_uc011cit.1_Missense_Mutation_p.P336S|GRIA2_uc003ipl.3_Missense_Mutation_p.P383S|GRIA2_uc003ipk.3_Missense_Mutation_p.P336S|GRIA2_uc010iqh.1_RNA	NM_001083619	NP_001077088	P42262	GRIA2_HUMAN	glutamate receptor, ionotropic, AMPA 2 isoform 2	383	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|endoplasmic reticulum membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			central_nervous_system(3)|ovary(1)	4	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0294)	L-Glutamic Acid(DB00142)	AACTAATGGGCCCCGGAAGGT	0.398													8	23					0	0	0.004482	0	0	
FNIP2	57600	broad.mit.edu	37	4	159789517	159789517	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:159789517G>A	uc003iqe.3	+	13	1912	c.1729G>A	c.(1729-1731)GCT>ACT	p.A577T		NM_020840	NP_065891	Q9P278	FNIP2_HUMAN	folliculin interacting protein 2	577	Interaction with PRKAA1.				DNA damage response, signal transduction resulting in induction of apoptosis|protein phosphorylation|regulation of protein phosphorylation	cytoplasm	protein binding				0	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.00936)		GAACGAGCCCGCTCTTGTACC	0.542													13	59					0	0	0.004990	0	0	
FNIP2	57600	broad.mit.edu	37	4	159789546	159789546	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:159789546A>G	uc003iqe.3	+	13	1941	c.1758A>G	c.(1756-1758)ACA>ACG	p.T586T		NM_020840	NP_065891	Q9P278	FNIP2_HUMAN	folliculin interacting protein 2	586	Interaction with PRKAA1.				DNA damage response, signal transduction resulting in induction of apoptosis|protein phosphorylation|regulation of protein phosphorylation	cytoplasm	protein binding				0	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.00936)		TACCACCAACAGCAGCAGAGA	0.542													23	39					0	0	0.004656	0	0	
RAPGEF2	9693	broad.mit.edu	37	4	160265202	160265202	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:160265202G>A	uc003iqg.3	+	17	3096	c.2786G>A	c.(2785-2787)CGG>CAG	p.R929Q		NM_014247	NP_055062	Q9Y4G8	RPGF2_HUMAN	Rap guanine nucleotide exchange factor 2	929	Ras-GEF.				cAMP-mediated signaling|MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|Rap GTPase activator activity|Rap guanyl-nucleotide exchange factor activity|signal transducer activity	p.R917P(1)		lung(2)|upper_aerodigestive_tract(1)|skin(1)	4	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.0817)		AAGAAATGGCGGAGTTTGGGG	0.433													29	68					0	0	0.009535	0	0	
RAPGEF2	9693	broad.mit.edu	37	4	160275010	160275010	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:160275010C>T	uc003iqg.3	+	22	4290	c.3980C>T	c.(3979-3981)GCG>GTG	p.A1327V		NM_014247	NP_055062	Q9Y4G8	RPGF2_HUMAN	Rap guanine nucleotide exchange factor 2	1327					cAMP-mediated signaling|MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|Rap GTPase activator activity|Rap guanyl-nucleotide exchange factor activity|signal transducer activity			lung(2)|upper_aerodigestive_tract(1)|skin(1)	4	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.0817)		GCAAGCTGGGCGTCTTCCACA	0.473													6	66					0	0	0.001168	0	0	
FSTL5	56884	broad.mit.edu	37	4	163032431	163032431	+	Nonsense_Mutation	SNP	G	A	A	rs141917472	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:163032431G>A	uc003iqh.2	-	2	554	c.118C>T	c.(118-120)CGA>TGA	p.R40*	FSTL5_uc003iqi.2_Nonsense_Mutation_p.R40*|FSTL5_uc010iqv.2_Nonsense_Mutation_p.R40*	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	40						extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		ACCTTATGTCGCAATCTCATT	0.393													28	87					0	0	0.002096	0	0	
TKTL2	84076	broad.mit.edu	37	4	164393491	164393491	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:164393491C>T	uc003iqp.3	-	1	1557	c.1396G>A	c.(1396-1398)GCC>ACC	p.A466T		NM_032136	NP_115512	Q9H0I9	TKTL2_HUMAN	transketolase-like 2	466						cytoplasm	metal ion binding|transketolase activity			ovary(2)|skin(2)|pancreas(1)	5	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				TTGGTATTGGCGGCTAGATAA	0.463													7	85					0	0	0.001368	0	0	
TKTL2	84076	broad.mit.edu	37	4	164393888	164393888	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:164393888G>A	uc003iqp.3	-	1	1160	c.999C>T	c.(997-999)GGC>GGT	p.G333G		NM_032136	NP_115512	Q9H0I9	TKTL2_HUMAN	transketolase-like 2	333						cytoplasm	metal ion binding|transketolase activity			ovary(2)|skin(2)|pancreas(1)	5	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				catttgcacggcccagtttag	0.194													24	103					0	0	0.003330	0	0	
TKTL2	84076	broad.mit.edu	37	4	164394215	164394215	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:164394215G>T	uc003iqp.3	-	1	833	c.672C>A	c.(670-672)GCC>GCA	p.A224A		NM_032136	NP_115512	Q9H0I9	TKTL2_HUMAN	transketolase-like 2	224						cytoplasm	metal ion binding|transketolase activity			ovary(2)|skin(2)|pancreas(1)	5	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				CTTGGCACAAGGCCTCCACAT	0.488													14	55					2.23348e-06	2.36628e-06	0.004007	1	0	
C4orf43	55319	broad.mit.edu	37	4	164435266	164435266	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:164435266A>C	uc003iqq.3	+	4	476	c.195A>C	c.(193-195)CAA>CAC	p.Q65H		NM_018352	NP_060822	Q96EY4	CD043_HUMAN	hypothetical protein LOC55319	65											0						TTGATCCCCAAAAAAAGAGAT	0.363													5	83					0	0	0.001168	0	0	
ANP32C	23520	broad.mit.edu	37	4	165118464	165118464	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:165118464G>T	uc011cjk.1	-	1	400	c.400C>A	c.(400-402)CTT>ATT	p.L134I	MARCH1_uc003iqs.1_Intron	NM_012403	NP_036535	O43423	AN32C_HUMAN	acidic nuclear phosphoprotein 32C	134	LRR 4.										0	all_hematologic(180;0.203)	Prostate(90;0.0138)|Melanoma(52;0.18)|all_neural(102;0.223)		KIRC - Kidney renal clear cell carcinoma(143;0.242)		TGCAGGAGAAGCTTGAACACG	0.488													30	84					8.16721e-17	8.91698e-17	0.002096	1	0	
TRIM60	166655	broad.mit.edu	37	4	165962417	165962417	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:165962417C>T	uc003iqy.1	+	3	1363	c.1193C>T	c.(1192-1194)GCG>GTG	p.A398V	TRIM60_uc010iqx.1_Missense_Mutation_p.A398V	NM_152620	NP_689833	Q495X7	TRI60_HUMAN	ring finger protein 129	398	B30.2/SPRY.					intracellular	zinc ion binding			skin(1)	1	all_hematologic(180;0.221)	Prostate(90;0.0959)|Melanoma(52;0.18)		GBM - Glioblastoma multiforme(119;0.0844)		GGTTATGTTGCGTCAGGTCCT	0.443													7	102					0	0	0.004482	0	0	
Unknown	0	broad.mit.edu	37	4	165980680	165980680	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:165980680C>T	uc011cjl.1	+	1	381	c.381C>T	c.(379-381)GGC>GGT	p.G127G		NM_001105575	NP_001099045			tripartite motif-containing 75																		ACCACCAGGGCCACCATGTGA	0.522													19	32					0	0	0.010504	0	0	
GK3P	2713	broad.mit.edu	37	4	166200297	166200297	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:166200297G>A	uc003ird.3	-	1	879	c.501C>T	c.(499-501)GCC>GCT	p.A167A	KLHL2_uc003irb.2_Intron|KLHL2_uc011cjm.1_Intron|KLHL2_uc003irc.2_Intron|KLHL2_uc010ira.2_Intron	NM_000167	NP_000158			glycerol kinase isoform b												0						TTTCTTCAACGGCCTTTTGAA	0.438													4	73					0	0	0.009096	0	0	
PALLD	23022	broad.mit.edu	37	4	169433100	169433100	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:169433100A>G	uc011cjx.1	+	2	656	c.445A>G	c.(445-447)AGC>GGC	p.S149G	PALLD_uc003iru.2_Missense_Mutation_p.S149G	NM_016081	NP_057165	Q8WX93	PALLD_HUMAN	palladin isoform 2	149					cytoskeleton organization	actin filament|focal adhesion|lamellipodium|nucleus|ruffle|sarcomere	actin binding|muscle alpha-actinin binding			ovary(1)	1		Prostate(90;0.00996)|Renal(120;0.0203)|Melanoma(52;0.144)		GBM - Glioblastoma multiforme(119;0.204)		AAAAACTCCCAGCACAAACGT	0.522									Pancreatic_Cancer_Familial_Clustering_of				19	46					0	0	0.007413	0	0	
MFAP3L	9848	broad.mit.edu	37	4	170913308	170913308	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:170913308C>T	uc003isp.3	-	3	629	c.451G>A	c.(451-453)GTC>ATC	p.V151I	MFAP3L_uc003isn.3_Missense_Mutation_p.V48I	NM_021647	NP_067679	O75121	MFA3L_HUMAN	microfibrillar-associated protein 3-like isoform	151	Helical; (Potential).					integral to membrane|plasma membrane				ovary(1)	1		Prostate(90;0.00601)|Renal(120;0.0183)|all_neural(102;0.122)|Melanoma(52;0.17)		GBM - Glioblastoma multiforme(119;0.0201)|LUSC - Lung squamous cell carcinoma(193;0.116)		ATGTAGTAGACACCCATGTCT	0.517													17	67					0	0	0.004990	0	0	
MORF4	10934	broad.mit.edu	37	4	174537473	174537473	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:174537473C>T	uc011cke.1	-	1	322	c.322G>A	c.(322-324)GAC>AAC	p.D108N		NM_006792	NP_006783			mortality factor 4												0		Prostate(90;0.00201)|Renal(120;0.0183)|Melanoma(52;0.0749)|all_neural(102;0.0765)|all_hematologic(60;0.107)		all cancers(43;1.88e-18)|Epithelial(43;1.19e-16)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-09)|STAD - Stomach adenocarcinoma(60;0.00273)|GBM - Glioblastoma multiforme(59;0.0064)|LUSC - Lung squamous cell carcinoma(193;0.0903)|Kidney(143;0.249)		TTTGCATAGTCCTCAAGAATG	0.383													61	156					0	0	0.003610	0	0	
WDR17	116966	broad.mit.edu	37	4	177041100	177041100	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:177041100G>A	uc003iuj.2	+	5	618	c.462G>A	c.(460-462)TGG>TGA	p.W154*	WDR17_uc003iuk.2_Nonsense_Mutation_p.W130*|WDR17_uc003ium.3_Nonsense_Mutation_p.W130*|WDR17_uc003iul.1_Intron	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	154	WD 2.									ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		TGTTCATTTGGACCATCTCAG	0.453													26	110					0	0	0.007291	0	0	
ASB5	140458	broad.mit.edu	37	4	177136833	177136833	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:177136833C>T	uc003iuq.1	-	7	924	c.908G>A	c.(907-909)AGC>AAC	p.S303N	ASB5_uc003iup.1_Missense_Mutation_p.S250N	NM_080874	NP_543150	Q8WWX0	ASB5_HUMAN	ankyrin repeat and SOCS box-containing protein	303	SOCS box.				intracellular signal transduction					skin(2)	2		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.13e-20)|Epithelial(43;9.94e-18)|OV - Ovarian serous cystadenocarcinoma(60;2e-09)|GBM - Glioblastoma multiforme(59;0.000254)|STAD - Stomach adenocarcinoma(60;0.000653)|LUSC - Lung squamous cell carcinoma(193;0.0393)		TCCTATGTAGCTTCGGATACA	0.353													13	42					0	0	0.007413	0	0	
NEIL3	55247	broad.mit.edu	37	4	178283618	178283618	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:178283618G>A	uc003iut.2	+	10	1928	c.1811G>A	c.(1810-1812)GGA>GAA	p.G604E		NM_018248	NP_060718	Q8TAT5	NEIL3_HUMAN	nei endonuclease VIII-like 3	604					base-excision repair|nucleotide-excision repair	nucleus	bubble DNA binding|damaged DNA binding|DNA N-glycosylase activity|DNA-(apurinic or apyrimidinic site) lyase activity|double-stranded DNA binding|single-stranded DNA binding|zinc ion binding			lung(2)|ovary(1)|central_nervous_system(1)	4		Breast(14;6.27e-05)|Melanoma(52;0.00102)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.164)		all cancers(43;1.96e-23)|Epithelial(43;2.52e-20)|OV - Ovarian serous cystadenocarcinoma(60;1.89e-11)|GBM - Glioblastoma multiforme(59;9.49e-05)|Colorectal(24;0.00013)|COAD - Colon adenocarcinoma(29;0.000696)|STAD - Stomach adenocarcinoma(60;0.00308)|LUSC - Lung squamous cell carcinoma(193;0.0398)|READ - Rectum adenocarcinoma(43;0.191)		ATTATTCCTGGATGCTAATAT	0.348								BER_DNA_glycosylases					4	40					0	0	0.009096	0	0	
ODZ3	55714	broad.mit.edu	37	4	183245190	183245190	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:183245190G>A	uc003ivd.1	+	1	54	c.17G>A	c.(16-18)CGC>CAC	p.R6H	ODZ3_uc010irv.1_Missense_Mutation_p.R6H	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	6	Cytoplasmic (Potential).|Teneurin N-terminal.				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		GTGAAAGAACGCAGGCCTTAC	0.522													9	22					0	0	0.006214	0	0	
ODZ3	55714	broad.mit.edu	37	4	183603050	183603050	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:183603050A>G	uc003ivd.1	+	10	1955	c.1918A>G	c.(1918-1920)AAT>GAT	p.N640D	ODZ3_uc003ive.1_Missense_Mutation_p.N46D	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	640	EGF-like 4.|Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		GGGAGGTAGCAATTGTGAAAT	0.507													6	38					0	0	0.001168	0	0	
RWDD4A	201965	broad.mit.edu	37	4	184567670	184567670	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:184567670G>C	uc003ivt.1	-	6	728	c.502C>G	c.(502-504)CGA>GGA	p.R168G	RWDD4A_uc003ivu.1_RNA|RWDD4A_uc003ivv.1_Missense_Mutation_p.R105G|RWDD4A_uc011ckl.1_RNA	NM_152682	NP_689895	Q6NW29	RWDD4_HUMAN	RWD domain containing 4A	168											0		all_lung(41;4.4e-14)|Lung NSC(41;1.03e-13)|Colorectal(36;0.00139)|all_hematologic(60;0.00756)|Hepatocellular(41;0.00826)|Renal(120;0.00988)|Prostate(90;0.0235)|all_neural(102;0.202)		all cancers(43;7.35e-27)|Epithelial(43;1.49e-22)|OV - Ovarian serous cystadenocarcinoma(60;5.76e-10)|GBM - Glioblastoma multiforme(59;5.54e-06)|Colorectal(24;7.92e-06)|STAD - Stomach adenocarcinoma(60;2.35e-05)|COAD - Colon adenocarcinoma(29;6.26e-05)|LUSC - Lung squamous cell carcinoma(40;0.00935)|READ - Rectum adenocarcinoma(43;0.166)		TTCCAGCCTCGAGGAAGTTCT	0.279													12	118					0	0	0.004007	0	0	
ENPP6	133121	broad.mit.edu	37	4	185039015	185039015	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:185039015C>T	uc003iwc.2	-	4	714	c.572G>A	c.(571-573)CGC>CAC	p.R191H		NM_153343	NP_699174	Q6UWR7	ENPP6_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	191	Extracellular (Potential).				lipid catabolic process	extracellular region|integral to membrane|plasma membrane				central_nervous_system(1)	1		all_lung(41;7.99e-12)|Lung NSC(41;1.46e-11)|Colorectal(36;0.00435)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;4.98e-27)|Epithelial(43;3.15e-24)|OV - Ovarian serous cystadenocarcinoma(60;4.09e-12)|Colorectal(24;3.78e-05)|STAD - Stomach adenocarcinoma(60;4.5e-05)|COAD - Colon adenocarcinoma(29;0.000154)|GBM - Glioblastoma multiforme(59;0.000167)|BRCA - Breast invasive adenocarcinoma(30;0.000378)|LUSC - Lung squamous cell carcinoma(40;0.0151)		CACGTCAATGCGCTCATGGTA	0.597													7	29					0	0	0.003080	0	0	
IRF2	3660	broad.mit.edu	37	4	185339814	185339814	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:185339814G>A	uc003iwf.3	-	4	436	c.236C>T	c.(235-237)GCG>GTG	p.A79V		NM_002199	NP_002190	P14316	IRF2_HUMAN	interferon regulatory factor 2	79	IRF tryptophan pentad repeat.				blood coagulation|cell proliferation|interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	focal adhesion|nucleoplasm	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		all_lung(41;7.86e-14)|Lung NSC(41;1.87e-13)|Colorectal(36;0.00146)|Hepatocellular(41;0.00826)|Renal(120;0.00992)|Prostate(90;0.0115)|all_neural(102;0.0573)|all_hematologic(60;0.0592)		all cancers(43;3.94e-27)|Epithelial(43;5.3e-24)|OV - Ovarian serous cystadenocarcinoma(60;1.06e-10)|Colorectal(24;7.98e-07)|STAD - Stomach adenocarcinoma(60;3.95e-05)|GBM - Glioblastoma multiforme(59;8.3e-05)|COAD - Colon adenocarcinoma(29;0.000106)|BRCA - Breast invasive adenocarcinoma(30;0.000311)|LUSC - Lung squamous cell carcinoma(40;0.0128)|READ - Rectum adenocarcinoma(43;0.0419)		TCTGAAATTCGCCTTCCATGT	0.383													16	29					0	0	0.004990	0	0	
LRP2BP	55805	broad.mit.edu	37	4	186288347	186288347	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:186288347C>T	uc003ixj.1	-	8	1843	c.1031G>A	c.(1030-1032)CGT>CAT	p.R344H	SNX25_uc003ixi.2_Intron|LRP2BP_uc003ixk.1_Missense_Mutation_p.R318H|LRP2BP_uc011ckr.1_Missense_Mutation_p.R344H	NM_018409	NP_060879	Q9P2M1	LR2BP_HUMAN	LRP2 binding protein	344						cytoplasm	protein binding				0		all_lung(41;1.3e-11)|Lung NSC(41;2.25e-11)|Melanoma(20;0.00109)|Colorectal(36;0.0215)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;2.14e-25)|Epithelial(43;1.55e-22)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-11)|BRCA - Breast invasive adenocarcinoma(30;8.01e-05)|GBM - Glioblastoma multiforme(59;0.000132)|STAD - Stomach adenocarcinoma(60;0.000766)|Colorectal(24;0.00116)|LUSC - Lung squamous cell carcinoma(40;0.00904)|COAD - Colon adenocarcinoma(29;0.0101)|READ - Rectum adenocarcinoma(43;0.161)		AATTCTTTGACGAATAAGTAA	0.343													42	128					0	0	0.008740	0	0	
PDLIM3	27295	broad.mit.edu	37	4	186446177	186446177	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:186446177T>C	uc003ixw.3	-	2	366	c.242A>G	c.(241-243)GAC>GGC	p.D81G	PDLIM3_uc003ixx.3_Missense_Mutation_p.D81G|PDLIM3_uc010isi.2_RNA|PDLIM3_uc003ixy.2_Missense_Mutation_p.D81G|PDLIM3_uc003ixz.2_Missense_Mutation_p.D81G	NM_014476	NP_055291	Q53GG5	PDLI3_HUMAN	PDZ and LIM domain protein 3 isoform a	81	PDZ.					sarcomere	zinc ion binding			ovary(2)	2		all_lung(41;1.03e-13)|Lung NSC(41;2.49e-13)|Melanoma(20;1.91e-06)|Hepatocellular(41;0.00826)|Renal(120;0.00988)|Prostate(90;0.00996)|Colorectal(36;0.0161)|all_hematologic(60;0.0592)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.4e-10)|BRCA - Breast invasive adenocarcinoma(30;8.64e-05)|GBM - Glioblastoma multiforme(59;0.000167)|STAD - Stomach adenocarcinoma(60;0.000828)|LUSC - Lung squamous cell carcinoma(40;0.00984)|COAD - Colon adenocarcinoma(29;0.0115)|READ - Rectum adenocarcinoma(43;0.171)		GAAGCACCTGTCAATTTTGAG	0.473													6	115					0	0	0.003080	0	0	
FAM149A	25854	broad.mit.edu	37	4	187086544	187086544	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:187086544C>T	uc003iyt.3	+	11	1669	c.1090C>T	c.(1090-1092)CGG>TGG	p.R364W	FAM149A_uc011cla.1_Missense_Mutation_p.R364W|FAM149A_uc003iyu.3_Missense_Mutation_p.R364W|FAM149A_uc010isl.2_Missense_Mutation_p.R364W|FAM149A_uc011clb.1_Missense_Mutation_p.R364W	NM_015398	NP_056213	A5PLN7	F149A_HUMAN	hypothetical protein LOC25854	655										breast(1)	1		all_cancers(14;4.27e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.0066)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.19e-10)|BRCA - Breast invasive adenocarcinoma(30;1.22e-05)|GBM - Glioblastoma multiforme(59;0.000122)|STAD - Stomach adenocarcinoma(60;0.000288)|LUSC - Lung squamous cell carcinoma(40;0.00241)|READ - Rectum adenocarcinoma(43;0.166)		TCAAACGTCACGGAGCAGGTT	0.537													13	42					0	0	0.003163	0	0	
CYP4V2	285440	broad.mit.edu	37	4	187120119	187120119	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:187120119A>G	uc003iyw.3	+	6	987	c.683A>G	c.(682-684)GAG>GGG	p.E228G		NM_207352	NP_997235	Q6ZWL3	CP4V2_HUMAN	cytochrome P450, family 4, subfamily v,	228					response to stimulus|visual perception	endoplasmic reticulum membrane|integral to membrane	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen				0		all_cancers(14;4.27e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.0066)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.33e-10)|BRCA - Breast invasive adenocarcinoma(30;3.84e-05)|GBM - Glioblastoma multiforme(59;0.000132)|STAD - Stomach adenocarcinoma(60;0.000293)|LUSC - Lung squamous cell carcinoma(40;0.00242)|READ - Rectum adenocarcinoma(43;0.17)		AGAATGAGTGAGATGATATTT	0.383													22	66					0	0	0.003954	0	0	
KLKB1	3818	broad.mit.edu	37	4	187172953	187172953	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:187172953C>T	uc003iyy.2	+	10	1153	c.1082C>T	c.(1081-1083)GCG>GTG	p.A361V	KLKB1_uc011clc.1_Missense_Mutation_p.A159V|KLKB1_uc011cld.1_Missense_Mutation_p.A323V	NM_000892	NP_000883	P03952	KLKB1_HUMAN	plasma kallikrein B1 precursor	361	Apple 4.				blood coagulation, intrinsic pathway|Factor XII activation|fibrinolysis|plasminogen activation|positive regulation of fibrinolysis	cytoplasm|extracellular space|plasma membrane	serine-type endopeptidase activity			ovary(1)	1		all_cancers(14;1.55e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00664)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.29e-10)|BRCA - Breast invasive adenocarcinoma(30;3.8e-05)|GBM - Glioblastoma multiforme(59;0.000131)|STAD - Stomach adenocarcinoma(60;0.000292)|LUSC - Lung squamous cell carcinoma(40;0.00241)|READ - Rectum adenocarcinoma(43;0.168)		ACTAGGATTGCGTATGGGACA	0.443													23	96					0	0	0.002780	0	0	
FAT1	2195	broad.mit.edu	37	4	187540638	187540638	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:187540638G>A	uc003izf.2	-	10	7290	c.7102C>T	c.(7102-7104)CCC>TCC	p.P2368S		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	2368	Extracellular (Potential).|Cadherin 21.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						CTCAGCGTGGGCATACCACCA	0.498										HNSCC(5;0.00058)			30	73					0	0	0.008361	0	0	
FAT1	2195	broad.mit.edu	37	4	187540995	187540995	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:187540995C>T	uc003izf.2	-	10	6933	c.6745G>A	c.(6745-6747)GCA>ACA	p.A2249T		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	2249	Extracellular (Potential).|Cadherin 20.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						AGCTTATATGCCGGGTGGGCC	0.478										HNSCC(5;0.00058)			11	133					0	0	0.001855	0	0	
FAT1	2195	broad.mit.edu	37	4	187630114	187630114	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:187630114C>T	uc003izf.2	-	2	1056	c.868G>A	c.(868-870)GCA>ACA	p.A290T	FAT1_uc010iso.1_Missense_Mutation_p.A290T	NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	290	Extracellular (Potential).				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						CTTAAAGATGCTATGTCACCA	0.488										HNSCC(5;0.00058)			20	309					0	0	0.006320	0	0	
TUBB4Q	56604	broad.mit.edu	37	4	190903703	190903703	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:190903703G>A	uc011clg.1	-	4	1280	c.1277C>T	c.(1276-1278)GCC>GTC	p.A426V		NM_020040	NP_064424	Q99867	TBB4Q_HUMAN	tubulin, beta polypeptide 4, member Q	427					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity				0		all_cancers(14;1.44e-58)|all_epithelial(14;6.32e-41)|all_lung(41;8.13e-17)|Lung NSC(41;2.13e-16)|Breast(6;2.54e-06)|Melanoma(20;0.000263)|Hepatocellular(41;0.00213)|Renal(120;0.0183)|all_hematologic(60;0.0358)|Prostate(90;0.0421)|all_neural(102;0.147)		all cancers(3;4.1e-31)|Epithelial(3;1.44e-30)|OV - Ovarian serous cystadenocarcinoma(60;2.03e-15)|BRCA - Breast invasive adenocarcinoma(30;8.54e-06)|Lung(3;3.23e-05)|STAD - Stomach adenocarcinoma(60;8.24e-05)|LUSC - Lung squamous cell carcinoma(40;0.000184)|GBM - Glioblastoma multiforme(59;0.00839)|READ - Rectum adenocarcinoma(43;0.155)		CTCGGCCGTGGCATCCTGATA	0.537													14	147					0	0	0.003163	0	0	
PLEKHG4B	153478	broad.mit.edu	37	5	162053	162053	+	Silent	SNP	C	T	T	rs145013757	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:162053C>T	uc003jak.2	+	10	1625	c.1575C>T	c.(1573-1575)TGC>TGT	p.C525C		NM_052909	NP_443141	Q96PX9	PKH4B_HUMAN	pleckstrin homology domain containing, family G	525					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(2)	2			all cancers(22;0.0253)|Lung(60;0.113)	Kidney(1;0.119)		CCGAGTTGTGCGAGACGGTAA	0.637													8	4					0	0	0.004482	0	0	
LRRC14B	389257	broad.mit.edu	37	5	194842	194842	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:194842C>T	uc003jal.1	+	2	947	c.919C>T	c.(919-921)CGA>TGA	p.R307*		NM_001080478	NP_001073947	A6NHZ5	LR14B_HUMAN	leucine rich repeat containing 14B	307	LRR 2.									skin(1)	1						GACCCCGCTGCGAGTACTGGA	0.647													5	19					0	0	0.001168	0	0	
CCDC127	133957	broad.mit.edu	37	5	205673	205673	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:205673G>A	uc003jam.1	-	3	622	c.522C>T	c.(520-522)TGC>TGT	p.C174C		NM_145265	NP_660308	Q96BQ5	CC127_HUMAN	coiled-coil domain containing 127	174											0			all cancers(22;0.0236)|Lung(60;0.113)			GAAACAGACTGCAGTAGATAT	0.522													11	48					0	0	0.001368	0	0	
SDHA	6389	broad.mit.edu	37	5	226056	226056	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:226056C>T	uc003jao.3	+	5	630	c.515C>T	c.(514-516)GCA>GTA	p.A172V	SDHA_uc003jan.2_Missense_Mutation_p.A172V|SDHA_uc011clv.1_Missense_Mutation_p.A172V|SDHA_uc011clw.1_Missense_Mutation_p.A124V|SDHA_uc003jap.3_Missense_Mutation_p.A172V|SDHA_uc003jaq.3_5'Flank	NM_004168	NP_004159	P31040	DHSA_HUMAN	succinate dehydrogenase complex, subunit A,	172					nervous system development|respiratory electron transport chain|succinate metabolic process|transport|tricarboxylic acid cycle	mitochondrial respiratory chain complex II	electron carrier activity|flavin adenine dinucleotide binding|protein binding|succinate dehydrogenase (ubiquinone) activity				0			Epithelial(17;0.0159)|all cancers(22;0.0236)|OV - Ovarian serous cystadenocarcinoma(19;0.0674)|Lung(60;0.113)		Succinic acid(DB00139)	TATCAGCGTGCATTTGGTGGA	0.463									Familial_Paragangliomas				8	118					0	0	0.001368	0	0	
EXOC3	11336	broad.mit.edu	37	5	453727	453727	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:453727C>T	uc003jba.2	+	4	735	c.607C>T	c.(607-609)CGC>TGC	p.R203C		NM_007277	NP_009208	O60645	EXOC3_HUMAN	Sec6 protein	214					exocytosis|protein transport						0		Ovarian(839;0.0563)	Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			GGTCACTGTCCGCCGTGACCC	0.537													5	82					0	0	0.001168	0	0	
EXOC3	11336	broad.mit.edu	37	5	453949	453949	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:453949C>T	uc003jba.2	+	4	957	c.829C>T	c.(829-831)CGC>TGC	p.R277C		NM_007277	NP_009208	O60645	EXOC3_HUMAN	Sec6 protein	288					exocytosis|protein transport						0		Ovarian(839;0.0563)	Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			GTGGCTTGTCCGCCACCTGGA	0.473													10	46					0	0	0.008291	0	0	
SLC9A3	6550	broad.mit.edu	37	5	492080	492080	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:492080C>T	uc003jbe.2	-	2	430	c.318G>A	c.(316-318)GCG>GCA	p.A106A	SLC9A3_uc011clx.1_Silent_p.A106A	NM_004174	NP_004165	P48764	SL9A3_HUMAN	solute carrier family 9 (sodium/hydrogen	106	Extracellular (Potential).					cell surface|integral to membrane	sodium:hydrogen antiporter activity				0			Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			GTGTGAAGGACGCGATGTGGT	0.652													5	11					0	0	0.001168	0	0	
TERT	7015	broad.mit.edu	37	5	1264611	1264611	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:1264611C>T	uc003jcb.1	-	11	2809	c.2751G>A	c.(2749-2751)ACG>ACA	p.T917T	TERT_uc003jbz.1_Silent_p.T113T|TERT_uc003jca.1_Silent_p.T905T|TERT_uc003jcc.1_Intron|TERT_uc003jcd.1_Intron|TERT_uc003jce.1_Intron	NM_198253	NP_937983	O14746	TERT_HUMAN	telomerase reverse transcriptase isoform 1	917	Required for oligomerization.|Reverse transcriptase.				anti-apoptosis|DNA strand elongation|replicative senescence|telomere formation via telomerase|telomere maintenance via telomerase	cytoplasm|nucleolus|PML body|telomerase holoenzyme complex	protein homodimerization activity|telomeric DNA binding|telomeric RNA binding|telomeric template RNA reverse transcriptase activity			lung(7)|ovary(2)|central_nervous_system(2)|skin(1)	12	all_cancers(3;3.17e-16)|Lung NSC(6;8.55e-15)|all_lung(6;7.2e-14)|all_epithelial(6;1.87e-10)		Epithelial(17;0.00105)|all cancers(22;0.00178)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			GAACAAAAGCCGTGCCACCCA	0.622									TERT_Mutation-Associated_Haematological_Disorders|Congenital_Dyskeratosis|Pulmonary_Fibrosis_Idiopathic				13	35					0	0	0.001855	0	0	
SLC6A3	6531	broad.mit.edu	37	5	1409199	1409199	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:1409199G>A	uc003jck.2	-	11	1561	c.1440C>T	c.(1438-1440)GCC>GCT	p.A480A		NM_001044	NP_001035	Q01959	SC6A3_HUMAN	solute carrier family 6 (neurotransmitter	480					cell death|neurotransmitter biosynthetic process	axon|cytoplasm|integral to plasma membrane|neuronal cell body				ovary(3)|breast(2)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(19;0.00928)|all cancers(22;0.0262)		Amphetamine(DB00182)|Benztropine(DB00245)|Bupropion(DB01156)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dextroamphetamine(DB01576)|Diethylpropion(DB00937)|Duloxetine(DB00476)|Fencamfamine(DB01463)|Mazindol(DB00579)|Methylphenidate(DB00422)|Modafinil(DB00745)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Procaine(DB00721)	TGGACGTGCCGGCTGCAAAAT	0.592													10	14					0	0	0.001368	0	0	
IRX4	50805	broad.mit.edu	37	5	1879729	1879729	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:1879729G>A	uc003jcz.2	-	4	744	c.625C>T	c.(625-627)CCG>TCG	p.P209S	IRX4_uc011cmf.1_Missense_Mutation_p.P70S	NM_016358	NP_057442	P78413	IRX4_HUMAN	iroquois homeobox 4	209					heart development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0				GBM - Glioblastoma multiforme(108;0.242)		TTCCGCGGCGGCCACGTCATC	0.483													14	19					0	0	0.001855	0	0	
KIAA0947	23379	broad.mit.edu	37	5	5461451	5461451	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:5461451G>A	uc003jdm.3	+	13	2226	c.2004G>A	c.(2002-2004)CCG>CCA	p.P668P		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	668										ovary(1)|central_nervous_system(1)	2						CTACTGAACCGCATCATTCAG	0.393													7	56					0	0	0.001984	0	0	
KIAA0947	23379	broad.mit.edu	37	5	5464600	5464600	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:5464600C>T	uc003jdm.3	+	13	5375	c.5153C>T	c.(5152-5154)GCG>GTG	p.A1718V		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	1718	Pro-rich.									ovary(1)|central_nervous_system(1)	2						CAGTTCTGTGCGGCCACGCCG	0.612													8	49					0	0	0.001855	0	0	
KIAA0947	23379	broad.mit.edu	37	5	5489418	5489418	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:5489418C>T	uc003jdm.3	+	19	6998	c.6776C>T	c.(6775-6777)GCC>GTC	p.A2259V		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	2259										ovary(1)|central_nervous_system(1)	2						GAAGTCAGTGCCCTGAGCACA	0.502													3	22					0	0	0.009096	0	0	
FLJ33360	401172	broad.mit.edu	37	5	6337301	6337301	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:6337301C>T	uc003jdn.1	-	1	105	c.8G>A	c.(7-9)GGC>GAC	p.G3D		NM_001001702	NP_001001702			SubName: Full=FLJ33360 protein; SubName: Full=cDNA FLJ33360 fis, clone BRACE2005253;												0						AATGCAGGTGCCGTCCATGCT	0.527													30	99					0	0	0.008361	0	0	
NSUN2	54888	broad.mit.edu	37	5	6607320	6607320	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:6607320C>T	uc003jdu.2	-	13	1566	c.1501G>A	c.(1501-1503)GTG>ATG	p.V501M	NSUN2_uc003jds.2_5'Flank|NSUN2_uc003jdt.2_Missense_Mutation_p.V265M|NSUN2_uc011cmk.1_Missense_Mutation_p.V466M|NSUN2_uc003jdv.2_Missense_Mutation_p.V265M	NM_017755	NP_060225	Q08J23	NSUN2_HUMAN	NOL1/NOP2/Sun domain family, member 2	501						cytoplasm|nucleolus	tRNA (cytosine-5-)-methyltransferase activity|tRNA binding			ovary(1)	1						TACCCACACACGCCATCTTTC	0.443													7	224					0	0	0.004482	0	0	
DNAH5	1767	broad.mit.edu	37	5	13811916	13811916	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:13811916C>T	uc003jfd.2	-	44	7289	c.7247G>A	c.(7246-7248)CGC>CAC	p.R2416H		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	2416	AAA 2 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					TTGAGGTGAGCGTTTCTTAAG	0.393									Kartagener_syndrome				9	60					0	0	0.004482	0	0	
DNAH5	1767	broad.mit.edu	37	5	13891148	13891148	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:13891148C>T	uc003jfd.2	-	17	2556	c.2514G>A	c.(2512-2514)ACG>ACA	p.T838T		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	838	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					GACAAAGAGGCGTGCTGCTCA	0.408									Kartagener_syndrome				39	81					0	0	0.004878	0	0	
TRIO	7204	broad.mit.edu	37	5	14367023	14367023	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:14367023G>A	uc003jff.2	+	16	2815	c.2809G>A	c.(2809-2811)GCC>ACC	p.A937T	TRIO_uc003jfg.2_RNA|TRIO_uc011cna.1_Missense_Mutation_p.A888T|TRIO_uc003jfh.1_Missense_Mutation_p.A586T	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	937	Spectrin 3.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					ACTTATCACAGCCAGCTCGTT	0.547													20	80					0	0	0.001882	0	0	
TRIO	7204	broad.mit.edu	37	5	14401091	14401091	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:14401091C>T	uc003jff.2	+	31	4640	c.4634C>T	c.(4633-4635)ACA>ATA	p.T1545I	TRIO_uc003jfg.2_RNA|TRIO_uc003jfh.1_Missense_Mutation_p.T1194I	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	1545	PH 1.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					TTGGGTGTCACAGAACATGTT	0.393													8	37					0	0	0.006214	0	0	
FBXL7	23194	broad.mit.edu	37	5	15936704	15936704	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:15936704G>A	uc003jfn.1	+	4	1366	c.885G>A	c.(883-885)GCG>GCA	p.A295A		NM_012304	NP_036436	Q9UJT9	FBXL7_HUMAN	F-box and leucine-rich repeat protein 7	295	LRR 5.				ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(1)	3						CCATCGCGGCGCACTGCACGC	0.612													5	23					0	0	0.000602	0	0	
MYO10	4651	broad.mit.edu	37	5	16673839	16673839	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:16673839G>A	uc003jft.3	-	36	5592	c.5124C>T	c.(5122-5124)GGC>GGT	p.G1708G	MYO10_uc011cnb.1_Silent_p.G337G|MYO10_uc011cnc.1_Silent_p.G587G|MYO10_uc011cnd.1_Silent_p.G1065G|MYO10_uc011cne.1_Silent_p.G1065G|MYO10_uc010itx.2_Silent_p.G1330G	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	1708	FERM.				axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3						AGGAGCCGCCGCCATGGCAAT	0.527													17	34					0	0	0.004990	0	0	
MYO10	4651	broad.mit.edu	37	5	16818205	16818205	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:16818205G>A	uc003jft.3	-	3	660	c.192C>T	c.(190-192)GGC>GGT	p.G64G	MYO10_uc003jfu.2_Silent_p.G31G|MYO10_uc003jfv.2_Silent_p.G64G	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	64	Myosin head-like.				axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3						TGTCATCCACGCCCTCCTCGT	0.463													4	22					0	0	0.000602	0	0	
CDH12	1010	broad.mit.edu	37	5	21752162	21752162	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:21752162C>T	uc010iuc.2	-	12	2527	c.2069G>A	c.(2068-2070)CGC>CAC	p.R690H	CDH12_uc011cno.1_Missense_Mutation_p.R650H|CDH12_uc003jgk.2_Missense_Mutation_p.R690H|uc003jgj.2_Intron	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	690	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						TATATCCCTGCGAATTTTGTT	0.458										HNSCC(59;0.17)			13	73					0	0	0.002450	0	0	
PRDM9	56979	broad.mit.edu	37	5	23509190	23509190	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:23509190G>A	uc003jgo.2	+	2	230	c.48G>A	c.(46-48)GAG>GAA	p.E16E		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	16					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						AAGACACAGAGAGAACAGAGC	0.567										HNSCC(3;0.000094)			12	35					0	0	0.001855	0	0	
CDH10	1008	broad.mit.edu	37	5	24492981	24492981	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:24492981T>A	uc003jgr.1	-	10	1901	c.1569A>T	c.(1567-1569)AAA>AAT	p.K523N	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	523	Cadherin 5.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		TGAAAAAAAATTTCTGTCCAC	0.318										HNSCC(23;0.051)			52	146					0	0	0.003610	0	0	
CDH10	1008	broad.mit.edu	37	5	24498629	24498629	+	Splice_Site	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:24498629C>A	uc003jgr.1	-	9	1726	c.1394_splice	c.e9-1	p.N465_splice	CDH10_uc011cnu.1_Splice_Site	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein						adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		TTGGGATTGTCTGGAAAAGGG	0.363										HNSCC(23;0.051)			16	62					3.62473e-10	3.89718e-10	0.001882	1	0	
CDH10	1008	broad.mit.edu	37	5	24505247	24505247	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:24505247T>A	uc003jgr.1	-	8	1699	c.1367A>T	c.(1366-1368)AAT>ATT	p.N456I	CDH10_uc011cnu.1_Intron	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	456	Cadherin 4.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		AACAGTAAGATTATGCCACTG	0.308										HNSCC(23;0.051)			27	45					0	0	0.009535	0	0	
CDH10	1008	broad.mit.edu	37	5	24535840	24535840	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:24535840C>A	uc003jgr.1	-	4	950	c.618G>T	c.(616-618)CAG>CAT	p.Q206H	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	206	Cadherin 2.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		AGAAATAGGGCTGCCCTTGAA	0.443										HNSCC(23;0.051)			19	53					1.96292e-10	2.11133e-10	0.010504	1	0	
CDH9	1007	broad.mit.edu	37	5	26885767	26885767	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:26885767G>A	uc003jgs.1	-	11	2007	c.1838C>T	c.(1837-1839)ACG>ATG	p.T613M	CDH9_uc011cnv.1_Missense_Mutation_p.T206M	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	613	Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						GAGAGCTCCCGTGCTCAGGCC	0.507													6	34					0	0	0.001984	0	0	
C5orf22	55322	broad.mit.edu	37	5	31541102	31541102	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:31541102G>A	uc003jhj.3	+	5	981	c.854G>A	c.(853-855)GGC>GAC	p.G285D	C5orf22_uc011cnw.1_Intron|C5orf22_uc003jhk.3_Missense_Mutation_p.G20D	NM_018356	NP_060826	Q49AR2	CE022_HUMAN	hypothetical protein LOC55322	285										ovary(2)	2						AAGAAACCTGGCACCAACCTA	0.308													19	80					0	0	0.003954	0	0	
PDZD2	23037	broad.mit.edu	37	5	31799525	31799525	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:31799525T>C	uc003jhl.2	+	2	558	c.170T>C	c.(169-171)GTC>GCC	p.V57A	PDZD2_uc003jhm.2_Missense_Mutation_p.V57A	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	57					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						GAGAGTACGGTCCCACCTGAT	0.592													27	92					0	0	0.002445	0	0	
ZFR	51663	broad.mit.edu	37	5	32380215	32380215	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:32380215G>A	uc003jhr.1	-	16	2785	c.2705C>T	c.(2704-2706)GCT>GTT	p.A902V	ZFR_uc010ium.1_Missense_Mutation_p.A33V|ZFR_uc011cny.1_Intron	NM_016107	NP_057191	Q96KR1	ZFR_HUMAN	zinc finger RNA binding protein	902	DZF.				multicellular organismal development	chromosome|cytoplasm|nucleus	DNA binding|RNA binding|zinc ion binding				0				STAD - Stomach adenocarcinoma(35;0.19)		AGCAGCCAGAGCGTCAAGGCA	0.443													5	60					0	0	0.000602	0	0	
NPR3	4883	broad.mit.edu	37	5	32712628	32712628	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:32712628G>A	uc003jhv.2	+	1	964	c.746G>A	c.(745-747)CGC>CAC	p.R249H	NPR3_uc010iuo.2_Intron|NPR3_uc011cnz.1_Intron|NPR3_uc003jhu.2_Missense_Mutation_p.R249H	NM_000908	NP_000899	P17342	ANPRC_HUMAN	natriuretic peptide receptor C/guanylate cyclase	249	Extracellular (Potential).				osteoclast proliferation|positive regulation of urine volume|regulation of blood pressure|regulation of osteoblast proliferation|skeletal system development	integral to membrane	hormone binding|natriuretic peptide receptor activity			ovary(1)|central_nervous_system(1)	2					Nesiritide(DB04899)	GACATCGTGCGCAATATCCAG	0.627													20	104					0	0	0.002299	0	0	
Unknown	0	broad.mit.edu	37	5	33162382	33162382	+	RNA	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:33162382C>T	uc003jhx.2	+	1		c.117C>T								full-length cDNA clone CS0DI021YI22 of Placenta Cot 25-normalized of Homo sapiens (human).																		GAGCGCCCAGCTGCCAACACC	0.592													4	12					0	0	0.000602	0	0	
TARS	6897	broad.mit.edu	37	5	33453456	33453456	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:33453456G>A	uc003jhy.2	+	4	687	c.392G>A	c.(391-393)CGC>CAC	p.R131H	TARS_uc011cob.1_Missense_Mutation_p.R119H|TARS_uc010iup.1_Missense_Mutation_p.R72H|TARS_uc011coc.1_Missense_Mutation_p.R152H|TARS_uc003jhz.2_Missense_Mutation_p.R27H|TARS_uc011cod.1_Intron	NM_152295	NP_689508	P26639	SYTC_HUMAN	threonyl-tRNA synthetase	131					threonyl-tRNA aminoacylation	cytosol	ATP binding|protein homodimerization activity|threonine-tRNA ligase activity			ovary(2)	2					L-Threonine(DB00156)	GACCTGGACCGCCCTCTGGAA	0.393													21	105					0	0	0.003954	0	0	
RXFP3	51289	broad.mit.edu	37	5	33937066	33937066	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:33937066C>T	uc003jic.1	+	1	578	c.221C>T	c.(220-222)GCG>GTG	p.A74V		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	74	Extracellular (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						GCAGAGAGCGCGGACACAGAG	0.692													4	8					0	0	0.009096	0	0	
RXFP3	51289	broad.mit.edu	37	5	33938061	33938061	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:33938061C>T	uc003jic.1	+	1	1573	c.1216C>T	c.(1216-1218)CGC>TGC	p.R406C		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	406	Cytoplasmic (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						CCTGCTGTGGCGCATCGCGTC	0.582													4	33					0	0	0.000602	0	0	
TTC23L	153657	broad.mit.edu	37	5	34850347	34850347	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:34850347G>T	uc003jiu.2	+	4	416	c.313G>T	c.(313-315)GGG>TGG	p.G105W		NM_144725	NP_653326	Q6PF05	TT23L_HUMAN	tetratricopeptide repeat domain 23-like	105							binding			central_nervous_system(1)	1						GATTATTTTTGGGGACCATCA	0.453													39	161					3.7052e-28	4.06746e-28	0.003214	1	0	
SKP2	6502	broad.mit.edu	37	5	36168477	36168477	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:36168477G>A	uc003jkc.1	+	5	781	c.599G>A	c.(598-600)GGC>GAC	p.G200D	SKP2_uc011cou.1_Intron|SKP2_uc003jkd.2_Missense_Mutation_p.G200D	NM_005983	NP_005974	Q13309	SKP2_HUMAN	S-phase kinase-associated protein 2 isoform 1	200	LRR 3.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell proliferation|G1/S transition of mitotic cell cycle|S phase of mitotic cell cycle	nucleoplasm|SCF ubiquitin ligase complex	protein binding			central_nervous_system(2)|ovary(1)|breast(1)	4	all_lung(31;5.63e-05)		Epithelial(62;0.0396)|Lung(74;0.111)|all cancers(62;0.115)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			ACCCTCCACGGCATACTGTCT	0.507													34	190					0	0	0.002836	0	0	
NIPBL	25836	broad.mit.edu	37	5	37006526	37006526	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:37006526C>T	uc003jkl.3	+	17	4422	c.3923C>T	c.(3922-3924)GCG>GTG	p.A1308V	NIPBL_uc003jkk.3_Missense_Mutation_p.A1308V	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	1308					brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			ACAAAATCAGCGGATGCTTGT	0.338													14	72					0	0	0.001855	0	0	
C5orf42	65250	broad.mit.edu	37	5	37196023	37196023	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:37196023C>T	uc011cpa.1	-	21	3979	c.3748G>A	c.(3748-3750)GCA>ACA	p.A1250T	C5orf42_uc003jks.2_RNA|C5orf42_uc011coz.1_Missense_Mutation_p.A325T|C5orf42_uc011cpb.1_Missense_Mutation_p.A131T	NM_023073	NP_075561	E9PH94	E9PH94_HUMAN	hypothetical protein LOC65250	1250										ovary(4)|breast(2)|skin(1)	7	all_lung(31;0.000616)		COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.177)|Colorectal(62;0.202)			CTAAAAAATGCGATACCTCCT	0.383													12	65					0	0	0.001855	0	0	
EGFLAM	133584	broad.mit.edu	37	5	38418215	38418215	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:38418215C>T	uc003jlc.1	+	12	1866	c.1542C>T	c.(1540-1542)GGC>GGT	p.G514G	EGFLAM_uc003jlb.1_Silent_p.G514G|EGFLAM_uc003jle.1_Silent_p.G280G|EGFLAM_uc003jlf.1_Intron	NM_152403	NP_689616	Q63HQ2	EGFLA_HUMAN	EGF-like, fibronectin type III and laminin G	514	Laminin G-like 1.					cell junction|proteinaceous extracellular matrix|synapse				pancreas(3)|skin(3)|ovary(1)	7	all_lung(31;0.000385)					ATCTTGGTGGCGCTCCCAGCG	0.468													17	70					0	0	0.008871	0	0	
RICTOR	253260	broad.mit.edu	37	5	39002706	39002706	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:39002706C>T	uc003jlp.2	-	5	347	c.323G>A	c.(322-324)CGA>CAA	p.R108Q	RICTOR_uc003jlo.2_Missense_Mutation_p.R108Q|RICTOR_uc010ivf.2_5'UTR|RICTOR_uc003jlq.1_Missense_Mutation_p.R92Q|RICTOR_uc011cpk.1_Missense_Mutation_p.R108Q	NM_152756	NP_689969	Q6R327	RICTR_HUMAN	rapamycin-insensitive companion of mTOR	108					actin cytoskeleton reorganization|embryo development|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of TOR signaling cascade|regulation of protein kinase B signaling cascade|T cell costimulation	cytosol|TORC2 complex	protein binding			ovary(3)|lung(3)|skin(2)|kidney(1)|central_nervous_system(1)	10	all_lung(31;0.000396)					GATGAGATATCGAAGCGCTCG	0.363													10	161					0	0	0.008291	0	0	
C9	735	broad.mit.edu	37	5	39341719	39341719	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:39341719C>T	uc003jlv.3	-	3	356	c.267G>A	c.(265-267)GTG>GTA	p.V89V		NM_001737	NP_001728	P02748	CO9_HUMAN	complement component 9 precursor	89	TSP type-1.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis|hemolysis by symbiont of host erythrocytes	extracellular region|membrane attack complex					0	all_lung(31;0.000197)	all_neural(839;7.57e-10)|Lung NSC(810;2.62e-08)|Ovarian(839;0.00384)|Breast(839;0.0184)|Myeloproliferative disorder(839;0.0511)	Epithelial(62;0.158)			GCTCTGTGGGCACACACTGTC	0.463													14	56					0	0	0.007413	0	0	
DAB2	1601	broad.mit.edu	37	5	39388941	39388941	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:39388941G>A	uc003jlx.2	-	8	1115	c.584C>T	c.(583-585)GCC>GTC	p.A195V	DAB2_uc003jlw.2_Missense_Mutation_p.A195V	NM_001343	NP_001334	P98082	DAB2_HUMAN	disabled homolog 2	195	PID.				cell proliferation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of protein binding|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway, planar cell polarity pathway	clathrin coated vesicle membrane|coated pit	protein C-terminus binding			kidney(2)|skin(1)	3	all_lung(31;0.000197)		Epithelial(62;0.137)			AATCATTAGGGCCTCACTCCC	0.348													12	98					0	0	0.002450	0	0	
C7	730	broad.mit.edu	37	5	40959677	40959677	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:40959677C>T	uc003jmh.2	+	12	1730	c.1616C>T	c.(1615-1617)ACG>ATG	p.T539M	C7_uc011cpn.1_RNA	NM_000587	NP_000578	P10643	CO7_HUMAN	complement component 7 precursor	539	TSP type-1 2.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular region|membrane attack complex					0		Ovarian(839;0.0112)				GTTGGAGAAACGACAGAAAGC	0.542													4	31					0	0	0.009096	0	0	
FBXO4	26272	broad.mit.edu	37	5	41927346	41927346	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:41927346G>A	uc003jmq.2	+	2	477	c.421G>A	c.(421-423)GCA>ACA	p.A141T	FBXO4_uc003jmp.2_Missense_Mutation_p.A141T|FBXO4_uc003jmr.2_Missense_Mutation_p.A141T	NM_012176	NP_036308	Q9UKT5	FBX4_HUMAN	F-box only protein 4 isoform 1	141					positive regulation of protein ubiquitination|protein polyubiquitination|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|telomere maintenance|ubiquitin-dependent protein catabolic process	cytoplasm|SCF ubiquitin ligase complex	protein binding|protein homodimerization activity|ubiquitin-protein ligase activity			liver(1)	1		Lung NSC(810;4.15e-05)|Breast(839;0.00093)|Ovarian(839;0.00965)|Myeloproliferative disorder(839;0.0255)|all_neural(839;0.0604)				TGACTACATGGCAGTGTAAGT	0.269													9	75					0	0	0.004482	0	0	
CCL28	56477	broad.mit.edu	37	5	43388544	43388544	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:43388544C>T	uc003jnu.2	-	2	169	c.99G>A	c.(97-99)GAG>GAA	p.E33E	CCL28_uc003jns.2_RNA|CCL28_uc003jnt.2_RNA|CCL28_uc010ivn.2_5'UTR	NM_148672	NP_683513	Q9NRJ3	CCL28_HUMAN	chemokine (C-C motif) ligand 28 precursor	33					chemotaxis|immune response	extracellular space	chemokine activity			ovary(1)|kidney(1)	2						GATGTGAAACCTCCGTGCAAC	0.433													9	69					0	0	0.004482	0	0	
C5orf34	375444	broad.mit.edu	37	5	43494677	43494677	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:43494677A>G	uc003jnz.1	-	8	1496	c.1179T>C	c.(1177-1179)AAT>AAC	p.N393N		NM_198566	NP_940968	Q96MH7	CE034_HUMAN	hypothetical protein LOC375444	393										breast(1)	1	Lung NSC(6;2.07e-05)					GAGGAAGGTTATTTACTGAGT	0.323													7	53					0	0	0.004482	0	0	
FGF10	2255	broad.mit.edu	37	5	44305128	44305128	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:44305128G>A	uc003jog.1	-	3	596	c.596C>T	c.(595-597)GCT>GTT	p.A199V		NM_004465	NP_004456	O15520	FGF10_HUMAN	fibroblast growth factor 10 precursor	199					actin cytoskeleton reorganization|activation of MAPK activity|bud outgrowth involved in lung branching|ERK1 and ERK2 cascade|fibroblast growth factor receptor signaling pathway involved in mammary gland specification|insulin receptor signaling pathway|lacrimal gland development|lung saccule development|mesonephros development|negative regulation of cell cycle arrest|positive regulation of ATPase activity|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of DNA repair|positive regulation of DNA replication|positive regulation of epithelial cell migration|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of ERK1 and ERK2 cascade|positive regulation of hair follicle cell proliferation|positive regulation of keratinocyte migration|positive regulation of keratinocyte proliferation|positive regulation of lymphocyte proliferation|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of Ras protein signal transduction|positive regulation of transcription, DNA-dependent|positive regulation of urothelial cell proliferation|protein localization at cell surface|radial glial cell differentiation|regulation of saliva secretion|response to protein stimulus|secretion by lung epithelial cell involved in lung growth|tear secretion|thymus development|urothelial cell proliferation	cell surface|extracellular space|nucleus|plasma membrane	chemoattractant activity|growth factor activity|heparin binding|type 2 fibroblast growth factor receptor binding			lung(3)	3	Lung NSC(6;1.12e-06)					AAGAAAGTGAGCAGAGGTGTT	0.433													34	113					0	0	0.004289	0	0	
MRPS30	10884	broad.mit.edu	37	5	44811197	44811197	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:44811197C>T	uc003joh.2	+	2	726	c.688C>T	c.(688-690)CGA>TGA	p.R230*	MRPS30_uc003joi.1_RNA	NM_016640	NP_057724	Q9NP92	RT30_HUMAN	mitochondrial ribosomal protein S30	230					apoptosis|translation	mitochondrion|ribosome	structural constituent of ribosome				0	Lung NSC(6;8.08e-07)					TGATGACTTGCGATACCAGAT	0.383													23	91					0	0	0.004656	0	0	
HCN1	348980	broad.mit.edu	37	5	45267276	45267276	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:45267276C>T	uc003jok.2	-	7	1723	c.1698G>A	c.(1696-1698)GTG>GTA	p.V566V		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	566	cAMP.|Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						TGAAATTGTCCACGGAAAGTG	0.433													36	92					0	0	0.004878	0	0	
ISL1	3670	broad.mit.edu	37	5	50687126	50687126	+	Nonsense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:50687126G>T	uc003jor.2	+	5	1332	c.784G>T	c.(784-786)GGA>TGA	p.G262*		NM_002202	NP_002193	P61371	ISL1_HUMAN	islet-1	262	Gln-rich.				generation of precursor metabolites and energy|multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(2)|ovary(1)	3		Lung NSC(810;0.000845)|Breast(144;0.0411)				GGGGATGACAGGAACTCCCAT	0.512													4	19					0.00116845	0.00121571	0.001168	1	0	
PELO	53918	broad.mit.edu	37	5	52096901	52096901	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:52096901G>A	uc003jos.2	+	2	1658	c.673G>A	c.(673-675)GCA>ACA	p.A225T	ITGA1_uc003jov.2_Intron|ITGA1_uc003jou.2_Intron|PELO_uc003jot.1_Intron	NM_015946	NP_057030	Q9BRX2	PELO_HUMAN	pelota homolog	225					cell cycle|cell division|translation	cytoplasm|nucleus	endonuclease activity|metal ion binding|protein binding				0		Lung NSC(810;4.94e-05)|Breast(144;0.0848)				GTTTCAACAAGCAGTGAAGAC	0.478													16	59					0	0	0.003163	0	0	
SNX18	112574	broad.mit.edu	37	5	53815142	53815142	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:53815142C>T	uc003jpj.3	+	1	1550	c.1360C>T	c.(1360-1362)CGC>TGC	p.R454C	SNX18_uc011cqg.1_Missense_Mutation_p.R454C|SNX18_uc003jpi.3_Missense_Mutation_p.R454C	NM_052870	NP_443102	Q96RF0	SNX18_HUMAN	sorting nexin 18 isoform b	454	BAR.				cell communication|endocytosis|positive regulation of GTPase activity|protein transport	endomembrane system|endosome membrane|extrinsic to internal side of plasma membrane	phosphatidylinositol binding|protein binding				0		Lung NSC(810;3.46e-05)|Breast(144;0.102)				CGAGTTCGCGCGCAAGCAGGT	0.607													5	37					0	0	0.008291	0	0	
MIR449A	554213	broad.mit.edu	37	5	54466399	54466399	+	RNA	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:54466399C>T	hsa-mir-449a|MI0001648	-			c.52C>T			CDC20B_uc003jpn.1_Intron|CDC20B_uc010ivu.1_Intron|CDC20B_uc003jpo.1_Intron|CDC20B_uc010ivv.1_Intron|CDC20B_uc003jpp.2_Intron|uc011cqh.1_RNA																	0						TTAGCCGATGCCATTCACATA	0.393													5	68					0	0	0.001168	0	0	
DDX4	54514	broad.mit.edu	37	5	55082359	55082359	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:55082359C>T	uc003jqg.3	+	14	952	c.878C>T	c.(877-879)GCT>GTT	p.A293V	DDX4_uc010ivz.2_Missense_Mutation_p.A273V|DDX4_uc003jqh.3_Missense_Mutation_p.A259V|DDX4_uc003jqj.2_Missense_Mutation_p.A144V	NM_001136034	NP_001129506	Q9NQI0	DDX4_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 4 isoform	293	Q motif.				multicellular organismal development|sperm motility	perinuclear region of cytoplasm|pi-body|piP-body	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(1)|skin(1)	2		Lung NSC(810;6.93e-05)|all_neural(839;0.00409)|Prostate(74;0.0107)|Breast(144;0.0544)|Ovarian(174;0.223)				TTTGAAGAAGCTAATCTCTGT	0.323													4	61					0	0	0.000602	0	0	
MAP3K1	4214	broad.mit.edu	37	5	56155650	56155650	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:56155650C>T	uc003jqw.3	+	3	1243	c.742C>T	c.(742-744)CGA>TGA	p.R248*		NM_005921	NP_005912	Q13233	M3K1_HUMAN	mitogen-activated protein kinase kinase kinase	248					cellular response to mechanical stimulus|innate immune response|MyD88-dependent toll-like receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|zinc ion binding			ovary(1)|skin(1)	2		Lung NSC(810;4.65e-05)|Prostate(74;0.0132)|Breast(144;0.0321)|Ovarian(174;0.223)		OV - Ovarian serous cystadenocarcinoma(10;6.08e-40)		TTCCAAAGGCCGACGCAGTCC	0.507													6	25					0	0	0.001984	0	0	
C5orf35	133383	broad.mit.edu	37	5	56207341	56207341	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:56207341C>T	uc003jqx.2	+	2	817	c.444C>T	c.(442-444)GGC>GGT	p.G148G	C5orf35_uc003jqy.2_Intron	NM_153706	NP_714917	Q8NE22	CE035_HUMAN	hypothetical protein LOC133383	148										ovary(1)	1		Lung NSC(810;0.000861)|Prostate(74;0.0305)|Breast(144;0.173)		OV - Ovarian serous cystadenocarcinoma(10;2.58e-39)		TACCAAAAGGCGCAGTCGTAT	0.393													7	141					0	0	0.001984	0	0	
GPBP1	65056	broad.mit.edu	37	5	56542211	56542211	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:56542211T>C	uc003jrh.3	+	7	1837	c.563T>C	c.(562-564)TTC>TCC	p.F188S	GPBP1_uc010iwg.2_Missense_Mutation_p.F208S|GPBP1_uc003jri.3_Missense_Mutation_p.F17S|GPBP1_uc003jrj.3_Missense_Mutation_p.F195S|GPBP1_uc003jrk.3_Missense_Mutation_p.F195S|GPBP1_uc003jrl.3_RNA	NM_022913	NP_075064	Q86WP2	GPBP1_HUMAN	GC-rich promoter binding protein 1 isoform 1	188					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			large_intestine(1)|central_nervous_system(1)	2		Lung NSC(810;0.000861)|Prostate(74;0.0305)|Breast(144;0.222)		OV - Ovarian serous cystadenocarcinoma(10;7.64e-39)		CTATCTGGATTCCCAGTAGTA	0.403													9	82					0	0	0.008291	0	0	
RAB3C	115827	broad.mit.edu	37	5	58120962	58120962	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:58120962C>T	uc003jrp.2	+	4	566	c.469C>T	c.(469-471)CGA>TGA	p.R157*		NM_138453	NP_612462	Q96E17	RAB3C_HUMAN	RAB3C, member RAS oncogene family	157					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding			ovary(1)|central_nervous_system(1)	2		all_cancers(5;9.93e-10)|all_epithelial(5;1.49e-10)|all_lung(5;8.97e-05)|Lung NSC(5;0.000139)|Prostate(74;0.0664)		OV - Ovarian serous cystadenocarcinoma(10;1.8e-34)		CTCAACTGAGCGAGGTCAACA	0.388													16	42					0	0	0.004007	0	0	
NLN	57486	broad.mit.edu	37	5	65118709	65118709	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:65118709C>T	uc003juf.2	+	13	2197	c.2081C>T	c.(2080-2082)GCG>GTG	p.A694V	NLN_uc003jug.2_Missense_Mutation_p.A523V|NLN_uc010iww.2_Missense_Mutation_p.A371V	NM_020726	NP_065777	Q9BYT8	NEUL_HUMAN	neurolysin precursor	694					proteolysis	mitochondrial intermembrane space	metal ion binding|metalloendopeptidase activity			central_nervous_system(1)	1		Lung NSC(167;7.21e-05)|Prostate(74;0.0174)|Ovarian(174;0.186)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0743)|Lung(70;0.00616)		AACCAAAAAGCGTTCCTAATG	0.493													31	86					0	0	0.003271	0	0	
ERBB2IP	55914	broad.mit.edu	37	5	65340041	65340041	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:65340041T>C	uc003juk.1	+	17	1813	c.1505T>C	c.(1504-1506)GTA>GCA	p.V502A	ERBB2IP_uc003juh.1_Missense_Mutation_p.V502A|ERBB2IP_uc003jui.1_Missense_Mutation_p.V502A|ERBB2IP_uc003juj.1_Missense_Mutation_p.V502A|ERBB2IP_uc011cqx.1_Missense_Mutation_p.V502A|ERBB2IP_uc011cqy.1_Missense_Mutation_p.V502A|ERBB2IP_uc011cqz.1_Intron|ERBB2IP_uc010iwx.1_Missense_Mutation_p.V502A|ERBB2IP_uc003jul.1_Missense_Mutation_p.V502A	NM_018695	NP_061165	Q96RT1	LAP2_HUMAN	ERBB2 interacting protein isoform 2	502					basal protein localization|cell adhesion|cell cycle|cell growth|epidermal growth factor receptor signaling pathway|establishment or maintenance of epithelial cell apical/basal polarity|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization	basement membrane|cytoplasm|hemidesmosome|nucleus	ErbB-2 class receptor binding|integrin binding|structural constituent of cytoskeleton			ovary(3)|lung(2)|central_nervous_system(2)	7		Lung NSC(167;9.45e-06)|Prostate(74;0.0139)|Ovarian(174;0.0547)|Breast(144;0.093)|Colorectal(97;0.234)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0767)|Lung(70;0.00191)		CAAACCATTGTACATAGATTA	0.323													6	100					0	0	0.001168	0	0	
ERBB2IP	55914	broad.mit.edu	37	5	65349316	65349316	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:65349316G>A	uc003juk.1	+	21	2478	c.2170G>A	c.(2170-2172)GAT>AAT	p.D724N	ERBB2IP_uc003jui.1_Missense_Mutation_p.D724N|ERBB2IP_uc003juj.1_Missense_Mutation_p.D724N|ERBB2IP_uc011cqx.1_Missense_Mutation_p.D724N|ERBB2IP_uc011cqy.1_Missense_Mutation_p.D724N|ERBB2IP_uc011cqz.1_Intron|ERBB2IP_uc010iwx.1_Missense_Mutation_p.D720N|ERBB2IP_uc003jul.1_Missense_Mutation_p.D720N	NM_018695	NP_061165	Q96RT1	LAP2_HUMAN	ERBB2 interacting protein isoform 2	724					basal protein localization|cell adhesion|cell cycle|cell growth|epidermal growth factor receptor signaling pathway|establishment or maintenance of epithelial cell apical/basal polarity|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization	basement membrane|cytoplasm|hemidesmosome|nucleus	ErbB-2 class receptor binding|integrin binding|structural constituent of cytoskeleton			ovary(3)|lung(2)|central_nervous_system(2)	7		Lung NSC(167;9.45e-06)|Prostate(74;0.0139)|Ovarian(174;0.0547)|Breast(144;0.093)|Colorectal(97;0.234)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0767)|Lung(70;0.00191)		CAAAGCTCATGATAAAAAAGA	0.303													27	82					0	0	0.007291	0	0	
MAST4	375449	broad.mit.edu	37	5	66396393	66396393	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:66396393C>A	uc003jut.1	+	7	544	c.476C>A	c.(475-477)CCG>CAG	p.P159Q	MAST4_uc003jus.2_Missense_Mutation_p.P159Q|MAST4_uc003juu.1_Missense_Mutation_p.P169Q|MAST4_uc011cra.1_Missense_Mutation_p.P142Q|MAST4_uc010ixa.2_RNA|MAST4_uc003juv.2_Missense_Mutation_p.P154Q|MAST4_uc003juw.2_Missense_Mutation_p.P154Q	NM_015183	NP_055998	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase	351						cytoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(6)|ovary(2)|kidney(2)|breast(2)|central_nervous_system(1)	13		Lung NSC(167;8.56e-06)|Prostate(74;0.00637)|Ovarian(174;0.0563)|Breast(144;0.0586)|Colorectal(97;0.245)		Lung(70;0.011)		AGGAACACGCCGATGCGCCCC	0.473													22	56					1.2476e-16	1.36185e-16	0.006320	1	0	
MAST4	375449	broad.mit.edu	37	5	66448493	66448493	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:66448493T>C	uc003jut.1	+	24	2825	c.2757T>C	c.(2755-2757)AGT>AGC	p.S919S	MAST4_uc003juw.2_Silent_p.S847S	NM_015183	NP_055998	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase	1111	Ser-rich.					cytoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(6)|ovary(2)|kidney(2)|breast(2)|central_nervous_system(1)	13		Lung NSC(167;8.56e-06)|Prostate(74;0.00637)|Ovarian(174;0.0563)|Breast(144;0.0586)|Colorectal(97;0.245)		Lung(70;0.011)		CTCTGGGAAGTCCAATGTCTC	0.537													7	127					0	0	0.003080	0	0	
MAST4	375449	broad.mit.edu	37	5	66460439	66460439	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:66460439C>T	uc003jut.1	+	28	4933	c.4865C>T	c.(4864-4866)TCC>TTC	p.S1622F	MAST4_uc003juw.2_Missense_Mutation_p.S1550F|MAST4_uc003jux.2_5'Flank	NM_015183	NP_055998	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase	1814						cytoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(6)|ovary(2)|kidney(2)|breast(2)|central_nervous_system(1)	13		Lung NSC(167;8.56e-06)|Prostate(74;0.00637)|Ovarian(174;0.0563)|Breast(144;0.0586)|Colorectal(97;0.245)		Lung(70;0.011)		GCTCTCCTGTCCGGACCTCAG	0.602													9	68					0	0	0.000978	0	0	
BDP1	55814	broad.mit.edu	37	5	70805292	70805292	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:70805292C>T	uc003kbp.1	+	17	2636	c.2373C>T	c.(2371-2373)AGC>AGT	p.S791S	BDP1_uc003kbn.1_Silent_p.S791S|BDP1_uc003kbo.2_Silent_p.S791S	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	791					regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		TTTTTTATAGCGTTCAAGAGA	0.378													8	83					0	0	0.004482	0	0	
CARTPT	9607	broad.mit.edu	37	5	71016372	71016372	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:71016372C>T	uc003kbv.1	+	3	408	c.281C>T	c.(280-282)GCA>GTA	p.A94V		NM_004291	NP_004282	Q16568	CART_HUMAN	cocaine- and amphetamine-regulated transcript	94					activation of MAPKK activity|adult feeding behavior|cellular glucose homeostasis|cellular response to starvation|circadian regulation of gene expression|negative regulation of appetite|negative regulation of bone resorption|negative regulation of osteoclast differentiation|neuropeptide signaling pathway|positive regulation of blood pressure|positive regulation of epinephrine secretion|positive regulation of transmission of nerve impulse|synaptic transmission	extracellular space				ovary(1)	1		Lung NSC(167;0.00153)|Ovarian(174;0.0175)|Prostate(74;0.11)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;8.4e-56)	Amphetamine(DB00182)	AGGAAAGGGGCAAGGATCGGG	0.532													6	27					0	0	0.001168	0	0	
MAP1B	4131	broad.mit.edu	37	5	71491738	71491738	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:71491738G>T	uc003kbw.3	+	5	2797	c.2556G>T	c.(2554-2556)AAG>AAT	p.K852N	MAP1B_uc010iyw.1_Missense_Mutation_p.K869N|MAP1B_uc010iyx.1_Missense_Mutation_p.K726N|MAP1B_uc010iyy.1_Missense_Mutation_p.K726N	NM_005909	NP_005900	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	852						microtubule|microtubule associated complex	structural molecule activity			large_intestine(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5		Lung NSC(167;0.00202)|Ovarian(174;0.0175)|Prostate(461;0.142)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;7.99e-54)		ATGTAACAAAGGACATCAAGC	0.478													28	226					1.17739e-12	1.27535e-12	0.005443	1	0	
ZNF366	167465	broad.mit.edu	37	5	71743088	71743088	+	Missense_Mutation	SNP	G	A	A	rs144490986		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:71743088G>A	uc003kce.1	-	4	1867	c.1681C>T	c.(1681-1683)CGG>TGG	p.R561W		NM_152625	NP_689838	Q8N895	ZN366_HUMAN	zinc finger protein 366	561					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2		Lung NSC(167;0.0247)|Ovarian(174;0.0908)|Prostate(461;0.155)		OV - Ovarian serous cystadenocarcinoma(47;2.51e-53)		TGAAGGCCCCGCTCCATGACT	0.507													15	46					0	0	0.006122	0	0	
TMEM171	134285	broad.mit.edu	37	5	72427511	72427511	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:72427511C>T	uc003kcm.2	+	4	1133	c.929C>T	c.(928-930)GCT>GTT	p.A310V	TMEM171_uc003kcn.3_Missense_Mutation_p.A309V	NM_173490	NP_775761	Q8WVE6	TM171_HUMAN	transmembrane protein 171 isoform 1	310						integral to membrane					0		Lung NSC(167;0.0378)|Ovarian(174;0.0908)|Prostate(461;0.165)		OV - Ovarian serous cystadenocarcinoma(47;1.87e-54)|Lung(70;0.115)		AAAGAAAATGCTGCAGCTACA	0.383													28	89					0	0	0.003271	0	0	
RGNEF	64283	broad.mit.edu	37	5	73069726	73069726	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:73069726C>T	uc011csq.1	+	4	533	c.522C>T	c.(520-522)GGC>GGT	p.G174G	RGNEF_uc003kcx.2_Silent_p.G174G|RGNEF_uc003kcy.1_Silent_p.G174G|RGNEF_uc010izf.2_Silent_p.G174G	NM_001080479	NP_001073948	Q8N1W1	RGNEF_HUMAN	Rho-guanine nucleotide exchange factor	174					cell differentiation|intracellular signal transduction|regulation of Rho protein signal transduction	cytoplasm|plasma membrane	metal ion binding|Rho guanyl-nucleotide exchange factor activity|RNA binding				0		Lung NSC(167;0.0378)|all_lung(232;0.04)|Ovarian(174;0.0798)		OV - Ovarian serous cystadenocarcinoma(47;1.25e-51)		TGAGATGGGGCCTGGCTAAAC	0.458													5	13					0	0	0.000602	0	0	
ENC1	8507	broad.mit.edu	37	5	73931937	73931937	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:73931937T>C	uc003kdc.3	-	2	1505	c.374A>G	c.(373-375)GAC>GGC	p.D125G	ENC1_uc011css.1_Missense_Mutation_p.D52G	NM_003633	NP_003624	O14682	ENC1_HUMAN	ectodermal-neural cortex (with BTB-like domain)	125				INEENAESLLEAGDMLEFQ -> HQLEGKCRNSLLGSLVTC WSFK (in Ref. 1).	nervous system development	cytoplasm|cytoskeleton|nuclear matrix	actin binding			ovary(1)|pancreas(1)|skin(1)	3		all_lung(232;0.0154)|Lung NSC(167;0.0331)|Ovarian(174;0.0798)		OV - Ovarian serous cystadenocarcinoma(47;1.45e-59)		CTCCAGCATGTCACCAGCTTC	0.527													24	76					0	0	0.002780	0	0	
IQGAP2	10788	broad.mit.edu	37	5	75893291	75893291	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:75893291C>T	uc003kek.2	+	10	1157	c.935C>T	c.(934-936)GCT>GTT	p.A312V		NM_006633	NP_006624	Q13576	IQGA2_HUMAN	IQ motif containing GTPase activating protein 2	312					small GTPase mediated signal transduction	actin cytoskeleton	actin binding|calmodulin binding|GTPase inhibitor activity|Ras GTPase activator activity			ovary(6)|central_nervous_system(1)	7		all_lung(232;0.000514)|Lung NSC(167;0.00135)|Prostate(461;0.00838)|Ovarian(174;0.0149)		all cancers(79;1.38e-36)		CATATCAATGCTGTCATTCCG	0.532													6	43					0	0	0.001984	0	0	
IQGAP2	10788	broad.mit.edu	37	5	75967720	75967720	+	Missense_Mutation	SNP	G	A	A	rs138211969	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:75967720G>A	uc003kek.2	+	24	3202	c.2980G>A	c.(2980-2982)GAC>AAC	p.D994N	IQGAP2_uc010izv.2_Missense_Mutation_p.D547N|IQGAP2_uc011csv.1_Missense_Mutation_p.D490N|IQGAP2_uc003kel.2_Missense_Mutation_p.D490N|IQGAP2_uc010izw.1_5'Flank	NM_006633	NP_006624	Q13576	IQGA2_HUMAN	IQ motif containing GTPase activating protein 2	994	Ras-GAP.				small GTPase mediated signal transduction	actin cytoskeleton	actin binding|calmodulin binding|GTPase inhibitor activity|Ras GTPase activator activity			ovary(6)|central_nervous_system(1)	7		all_lung(232;0.000514)|Lung NSC(167;0.00135)|Prostate(461;0.00838)|Ovarian(174;0.0149)		all cancers(79;1.38e-36)		AGAGATCATCGACGACAAGTC	0.498													14	47					0	0	0.002450	0	0	
WDR41	55255	broad.mit.edu	37	5	76729078	76729078	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:76729078G>A	uc003kff.1	-	13	1549	c.1262C>T	c.(1261-1263)ACG>ATG	p.T421M	WDR41_uc011csy.1_Missense_Mutation_p.T363M|WDR41_uc011csz.1_Missense_Mutation_p.T366M	NM_018268	NP_060738	Q9HAD4	WDR41_HUMAN	WD repeat domain 41	421	WD 6.										0		all_lung(232;0.000961)|Lung NSC(167;0.0011)|Ovarian(174;0.0105)|Prostate(461;0.059)		OV - Ovarian serous cystadenocarcinoma(54;6.3e-50)|Epithelial(54;2.04e-44)|all cancers(79;6.84e-40)		AGCGGAGCACGTCACTAGTCC	0.368													14	49					0	0	0.004007	0	0	
BHMT2	23743	broad.mit.edu	37	5	78379533	78379533	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:78379533C>T	uc003kft.2	+	7	887	c.864C>T	c.(862-864)GGC>GGT	p.G288G	BHMT2_uc011cth.1_Silent_p.G224G	NM_017614	NP_060084	Q9H2M3	BHMT2_HUMAN	betaine-homocysteine methyltransferase 2	288	Hcy-binding.				methionine biosynthetic process	cytoplasm	betaine-homocysteine S-methyltransferase activity|homocysteine S-methyltransferase activity|zinc ion binding			ovary(1)	1		all_lung(232;0.00063)|Lung NSC(167;0.00171)|Ovarian(174;0.0261)|Prostate(461;0.191)		OV - Ovarian serous cystadenocarcinoma(54;2.09e-45)|Epithelial(54;9.3e-41)|all cancers(79;4.09e-36)	L-Methionine(DB00134)	GGTACATTGGCGGGTGCTGTG	0.522													8	28					0	0	0.001855	0	0	
BHMT	635	broad.mit.edu	37	5	78415085	78415085	+	Missense_Mutation	SNP	G	A	A	rs147391267		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:78415085G>A	uc003kfu.3	+	3	275	c.170G>A	c.(169-171)CGC>CAC	p.R57H	BHMT_uc011cti.1_Intron	NM_001713	NP_001704	Q93088	BHMT1_HUMAN	betaine-homocysteine methyltransferase	57	Hcy-binding.				protein methylation|regulation of homocysteine metabolic process	cytoplasm	betaine-homocysteine S-methyltransferase activity|homocysteine S-methyltransferase activity|zinc ion binding			ovary(1)	1		all_lung(232;0.00051)|Lung NSC(167;0.00131)|Ovarian(174;0.0261)|Prostate(461;0.191)		OV - Ovarian serous cystadenocarcinoma(54;1.88e-45)|Epithelial(54;8.07e-41)|all cancers(79;3.51e-36)	L-Methionine(DB00134)	CTCCCAGTTCGCCAGCTTCAT	0.443													7	69					0	0	0.006214	0	0	
THBS4	7060	broad.mit.edu	37	5	79357547	79357547	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:79357547G>A	uc003kgh.2	+	9	1340	c.1017G>A	c.(1015-1017)GTG>GTA	p.V339V		NM_003248	NP_003239	P35443	TSP4_HUMAN	thrombospondin 4 precursor	339	EGF-like 2; calcium-binding (Potential).				endothelial cell-cell adhesion|myoblast migration|negative regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of neutrophil chemotaxis|positive regulation of peptidyl-tyrosine phosphorylation	basement membrane|extracellular space	calcium ion binding|heparin binding|integrin binding|structural molecule activity				0		Lung NSC(167;0.00328)|all_lung(232;0.00355)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;6.3e-45)|Epithelial(54;1.77e-39)|all cancers(79;3.2e-34)		ACCCGGGCGTGCACTGCATAA	0.488													7	65					0	0	0.003080	0	0	
SERINC5	256987	broad.mit.edu	37	5	79498704	79498704	+	Splice_Site	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:79498704C>T	uc003kgj.2	-	2	324	c.195_splice	c.e2+1	p.H65_splice	SERINC5_uc003kgk.2_Splice_Site_p.H65_splice|SERINC5_uc003kgl.2_Splice_Site|SERINC5_uc003kgm.2_Splice_Site_p.H65_splice|SERINC5_uc011ctj.1_Splice_Site_p.H65_splice	NM_178276	NP_840060	Q86VE9	SERC5_HUMAN	developmentally regulated protein TPO1						phosphatidylserine metabolic process|phospholipid biosynthetic process|positive regulation of transferase activity	endoplasmic reticulum membrane|integral to membrane				ovary(1)	1		Lung NSC(167;0.00328)|all_lung(232;0.00356)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;2.93e-46)|Epithelial(54;5.59e-40)|all cancers(79;1.89e-34)		GACAAACTTACGTGCTCTTTC	0.493													5	55					0	0	0.001168	0	0	
ZFYVE16	9765	broad.mit.edu	37	5	79733039	79733039	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:79733039G>A	uc003kgr.3	+	4	837	c.535G>A	c.(535-537)GAC>AAC	p.D179N	ZFYVE16_uc010jak.1_Missense_Mutation_p.D179N|ZFYVE16_uc003kgp.2_Missense_Mutation_p.D179N|ZFYVE16_uc003kgq.3_Missense_Mutation_p.D179N|ZFYVE16_uc003kgs.3_Missense_Mutation_p.D179N	NM_001105251	NP_001098721	Q7Z3T8	ZFY16_HUMAN	zinc finger, FYVE domain containing 16	179					BMP signaling pathway|endosome transport|protein targeting to lysosome|regulation of endocytosis|vesicle organization	early endosome membrane	1-phosphatidylinositol binding|metal ion binding|phosphatidylinositol-3,4,5-trisphosphate binding|protein binding|protein transporter activity				0		Lung NSC(167;0.00428)|all_lung(232;0.00455)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;1.6e-46)|Epithelial(54;2.02e-41)|all cancers(79;5.05e-36)		TTCTTCAACAGACCATGATAG	0.328													9	64					0	0	0.006214	0	0	
CKMT2	1160	broad.mit.edu	37	5	80548572	80548572	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:80548572G>A	uc003khc.3	+	4	453	c.211G>A	c.(211-213)GCC>ACC	p.A71T	RNU5E_uc011cto.1_Intron|CKMT2_uc010jaq.2_Missense_Mutation_p.A71T|CKMT2_uc003khd.3_Missense_Mutation_p.A71T|uc003khe.1_Intron|uc003khf.1_Intron|uc003khg.1_Intron	NM_001825	NP_001816	P17540	KCRS_HUMAN	sarcomeric mitochondrial creatine kinase	71	Phosphagen kinase N-terminal.				creatine metabolic process|muscle contraction	mitochondrial inner membrane	ATP binding|creatine kinase activity				0		Lung NSC(167;0.00475)|all_lung(232;0.00502)|Ovarian(174;0.0336)		OV - Ovarian serous cystadenocarcinoma(54;2.29e-44)|Epithelial(54;1.05e-38)|all cancers(79;4.15e-34)	Creatine(DB00148)	CCTCACCCCCGCCATTTATGC	0.612													24	40					0	0	0.004656	0	0	
XRCC4	7518	broad.mit.edu	37	5	82406986	82406986	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:82406986T>C	uc003kib.2	+	3	407	c.279T>C	c.(277-279)TGT>TGC	p.C93C	XRCC4_uc003kia.1_Silent_p.C93C|XRCC4_uc003kid.2_Silent_p.C93C|XRCC4_uc003kic.2_Silent_p.C93C|XRCC4_uc003kie.2_Silent_p.C93C|XRCC4_uc003kif.1_Silent_p.C93C	NM_022406	NP_071801	Q13426	XRCC4_HUMAN	X-ray repair cross complementing protein 4	93					DNA ligation involved in DNA repair|double-strand break repair via nonhomologous end joining|initiation of viral infection|positive regulation of ligase activity|provirus integration|response to X-ray	cytosol|DNA ligase IV complex|DNA-dependent protein kinase-DNA ligase 4 complex|nucleoplasm	DNA binding|protein C-terminus binding			skin(3)	3		Lung NSC(167;0.00132)|all_lung(232;0.00154)|Ovarian(174;0.034)		OV - Ovarian serous cystadenocarcinoma(54;1.44e-38)|Epithelial(54;3.72e-33)|all cancers(79;9.22e-28)		AAGAGTCTTGTTATTTCTTCT	0.323								NHEJ					13	36					0	0	0.004007	0	0	
MEF2C	4208	broad.mit.edu	37	5	88100421	88100421	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:88100421G>A	uc003kjj.2	-	3	925	c.252C>T	c.(250-252)ATC>ATT	p.I84I	MEF2C_uc003kji.2_Silent_p.I84I|MEF2C_uc003kjk.2_Silent_p.I84I|MEF2C_uc003kjm.2_Silent_p.I84I|MEF2C_uc003kjl.2_Silent_p.I84I	NM_002397	NP_002388	Q06413	MEF2C_HUMAN	myocyte enhancer factor 2C isoform 1	84	Mef2-type (Potential).				apoptosis|B cell proliferation|innate immune response|learning or memory|muscle cell differentiation|muscle organ development|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|neuron development|positive regulation of muscle cell differentiation|positive regulation of survival gene product expression|positive regulation of transcription from RNA polymerase II promoter|regulation of germinal center formation|regulation of megakaryocyte differentiation|regulation of synaptic activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	nuclear speck	activating transcription factor binding|protein heterodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			lung(3)|breast(2)|ovary(1)|large_intestine(1)	7		all_cancers(142;6.67e-05)|all_epithelial(76;7.77e-07)|Lung NSC(167;0.00566)|all_lung(232;0.00732)|Colorectal(57;0.0959)|Ovarian(174;0.1)		OV - Ovarian serous cystadenocarcinoma(54;1.04e-33)|Epithelial(54;1.6e-28)|all cancers(79;2.9e-25)		TCACCTCCACGATGTCTGAGT	0.547										HNSCC(66;0.2)			5	36					0	0	0.001168	0	0	
POLR3G	10622	broad.mit.edu	37	5	89781409	89781409	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:89781409C>T	uc003kjq.2	+	2	225	c.25C>T	c.(25-27)CGT>TGT	p.R9C	POLR3G_uc011cuc.1_Missense_Mutation_p.R9C	NM_006467	NP_006458	O15318	RPC7_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	9					innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|regulation of transcription from RNA polymerase III promoter|response to virus	DNA-directed RNA polymerase III complex	DNA-directed RNA polymerase activity				0		all_cancers(142;5.03e-09)|all_epithelial(76;1.23e-11)|Lung NSC(167;2.46e-05)|all_lung(232;3.25e-05)|Ovarian(174;0.00832)|Colorectal(57;0.122)|Breast(839;0.198)		OV - Ovarian serous cystadenocarcinoma(54;2.74e-31)|Epithelial(54;8.2e-26)|all cancers(79;3.86e-22)		AGGAAGAGGACGTGCTGCTTA	0.393													5	93					0	0	0.001168	0	0	
MCTP1	79772	broad.mit.edu	37	5	94267673	94267673	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:94267673C>T	uc003kkx.2	-	6	1197	c.1197G>A	c.(1195-1197)TGG>TGA	p.W399*	MCTP1_uc003kkv.2_Nonsense_Mutation_p.W178*|MCTP1_uc003kkw.2_Nonsense_Mutation_p.W178*|MCTP1_uc003kkz.2_Nonsense_Mutation_p.W60*|MCTP1_uc003kku.2_5'Flank	NM_024717	NP_078993	Q6DN14	MCTP1_HUMAN	multiple C2 domains, transmembrane 1 isoform L	399					calcium-mediated signaling	integral to membrane|membrane fraction	calcium ion binding			ovary(2)	2		all_cancers(142;1.68e-05)|all_epithelial(76;1.51e-07)|all_lung(232;0.0167)|Lung NSC(167;0.0207)|Ovarian(225;0.0218)|Colorectal(57;0.207)		all cancers(79;9.1e-17)		TTGATCTTTTCCAACTCTTCC	0.358													44	165					0	0	0.003610	0	0	
RHOBTB3	22836	broad.mit.edu	37	5	95072640	95072640	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:95072640C>T	uc003klm.2	+	3	813	c.276C>T	c.(274-276)GGC>GGT	p.G92G	RHOBTB3_uc003klk.1_5'UTR	NM_014899	NP_055714	O94955	RHBT3_HUMAN	rho-related BTB domain containing 3	92	Rho-like.				retrograde transport, endosome to Golgi	Golgi apparatus	ATP binding|ATPase activity|Rab GTPase binding			lung(1)|skin(1)	2		all_cancers(142;2.58e-06)|all_epithelial(76;4.19e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.0164)|Colorectal(57;0.0846)|Breast(839;0.198)		all cancers(79;8.79e-16)		TAATTGGGGGCGCTGACATCA	0.338													19	64					0	0	0.001882	0	0	
PCSK1	5122	broad.mit.edu	37	5	95728946	95728946	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:95728946G>A	uc003kls.1	-	14	2227	c.2021C>T	c.(2020-2022)GCT>GTT	p.A674V	PCSK1_uc010jbi.1_Missense_Mutation_p.A364V	NM_000439	NP_000430	P29120	NEC1_HUMAN	proprotein convertase subtilisin/kexin type 1	674					cell-cell signaling|cellular nitrogen compound metabolic process|energy reserve metabolic process|hormone biosynthetic process|peptide biosynthetic process|peptide hormone processing|regulation of insulin secretion	extracellular space|stored secretory granule|transport vesicle	serine-type endopeptidase activity			ovary(2)	2		all_cancers(142;2.67e-06)|all_epithelial(76;6.92e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.0112)|Colorectal(57;0.0341)|Breast(839;0.244)		all cancers(79;3.44e-16)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	TTTACTGAAAGCACTTTGCAG	0.547													16	51					0	0	0.008871	0	0	
CHD1	1105	broad.mit.edu	37	5	98232112	98232112	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:98232112G>T	uc003knf.2	-	11	1676	c.1528C>A	c.(1528-1530)CTT>ATT	p.L510I		NM_001270	NP_001261	O14646	CHD1_HUMAN	chromodomain helicase DNA binding protein 1	510	Helicase ATP-binding.|ATP (Potential).				regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|methylated histone residue binding			lung(2)|ovary(1)|breast(1)|pancreas(1)	5		all_cancers(142;5.36e-08)|all_epithelial(76;6.97e-11)|Lung NSC(167;0.000693)|Prostate(80;0.000986)|all_lung(232;0.00119)|Ovarian(225;0.024)|Colorectal(57;0.117)		COAD - Colon adenocarcinoma(37;0.0717)	Epirubicin(DB00445)	GTTTTTCCAAGGCCCATTTCA	0.318													13	43					2.61681e-11	2.82339e-11	0.002450	1	0	
CHD1	1105	broad.mit.edu	37	5	98240797	98240797	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:98240797G>A	uc003knf.2	-	2	207	c.59C>T	c.(58-60)TCG>TTG	p.S20L		NM_001270	NP_001261	O14646	CHD1_HUMAN	chromodomain helicase DNA binding protein 1	20	Ser-rich.				regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|methylated histone residue binding			lung(2)|ovary(1)|breast(1)|pancreas(1)	5		all_cancers(142;5.36e-08)|all_epithelial(76;6.97e-11)|Lung NSC(167;0.000693)|Prostate(80;0.000986)|all_lung(232;0.00119)|Ovarian(225;0.024)|Colorectal(57;0.117)		COAD - Colon adenocarcinoma(37;0.0717)	Epirubicin(DB00445)	ATCATCATCCGACTGGCTATA	0.393													22	71					0	0	0.004656	0	0	
ST8SIA4	7903	broad.mit.edu	37	5	100238558	100238558	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:100238558C>T	uc003knk.2	-	1	430	c.102G>A	c.(100-102)ACG>ACA	p.T34T	ST8SIA4_uc003knl.2_Silent_p.T34T	NM_005668	NP_005659	Q92187	SIA8D_HUMAN	ST8 alpha-N-acetyl-neuraminide	34	Lumenal (Potential).				axon guidance|N-glycan processing	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			large_intestine(1)|central_nervous_system(1)	2		all_cancers(142;1.5e-07)|all_epithelial(76;1.43e-10)|Prostate(80;0.000644)|Lung NSC(167;0.0059)|all_lung(232;0.00914)|Ovarian(225;0.024)|Colorectal(57;0.09)|Breast(839;0.203)		COAD - Colon adenocarcinoma(37;0.00402)		CGATGAGTTGCGTCTCCTGGT	0.413													7	21					0	0	0.001984	0	0	
SLCO4C1	353189	broad.mit.edu	37	5	101592920	101592920	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:101592920A>G	uc003knm.2	-	8	1655	c.1368T>C	c.(1366-1368)TTT>TTC	p.F456F		NM_180991	NP_851322	Q6ZQN7	SO4C1_HUMAN	solute carrier organic anion transporter family,	456	Helical; Name=9; (Potential).				cell differentiation|multicellular organismal development|sodium-independent organic anion transport|spermatogenesis	basolateral plasma membrane|integral to membrane	sodium-independent organic anion transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|pancreas(1)	4		all_cancers(142;1.86e-08)|all_epithelial(76;5.24e-12)|Prostate(80;0.00124)|Colorectal(57;0.00332)|Ovarian(225;0.024)|Lung NSC(167;0.0402)|all_lung(232;0.0486)		Epithelial(69;4.07e-14)|COAD - Colon adenocarcinoma(37;0.00986)		TGAACAGTGCAAACTTCATTG	0.373													20	60					0	0	0.001882	0	0	
PAM	5066	broad.mit.edu	37	5	102237087	102237087	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:102237087C>T	uc003knw.2	+	3	611	c.238C>T	c.(238-240)CGA>TGA	p.R80*	PAM_uc003kns.2_Nonsense_Mutation_p.R80*|PAM_uc003knt.2_Nonsense_Mutation_p.R80*|PAM_uc003knu.2_Nonsense_Mutation_p.R80*|PAM_uc003knv.2_Nonsense_Mutation_p.R80*|PAM_uc011cuz.1_Intron	NM_000919	NP_000910	P19021	AMD_HUMAN	peptidylglycine alpha-amidating monooxygenase	80	Peptidylglycine alpha-hydroxylating monooxygenase (By similarity).|Intragranular (Potential).				peptide metabolic process|protein modification process	extracellular region|integral to membrane|stored secretory granule	L-ascorbic acid binding|peptidylamidoglycolate lyase activity|peptidylglycine monooxygenase activity|protein binding				0		all_cancers(142;3.12e-07)|all_epithelial(76;3.48e-10)|Prostate(80;0.00914)|Lung NSC(167;0.0213)|Ovarian(225;0.024)|Colorectal(57;0.0251)|all_lung(232;0.0284)		Epithelial(69;1.1e-13)|COAD - Colon adenocarcinoma(37;0.0127)	Vitamin C(DB00126)	CATGTCTATGCGAATACCAGT	0.348													4	17					0	0	0.003080	0	0	
PPIP5K2	23262	broad.mit.edu	37	5	102474135	102474135	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:102474135G>A	uc003kod.3	+	5	968	c.449G>A	c.(448-450)CGT>CAT	p.R150H	PPIP5K2_uc011cva.1_RNA|PPIP5K2_uc003koe.2_Missense_Mutation_p.R150H|PPIP5K2_uc010jbo.1_Missense_Mutation_p.R72H	NM_015216	NP_056031	O43314	VIP2_HUMAN	Histidine acid phosphatase domain containing 1	150					inositol metabolic process	cytosol	acid phosphatase activity|ATP binding|diphosphoinositol-pentakisphosphate kinase activity|inositol 1,3,4,5,6-pentakisphosphate kinase activity|inositol hexakisphosphate 5-kinase activity			ovary(1)|skin(1)	2						TTACTTCCTCGTTATGCTATT	0.363													16	45					0	0	0.004007	0	0	
NUDT12	83594	broad.mit.edu	37	5	102891660	102891660	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:102891660G>A	uc003koi.2	-	4	1029	c.936C>T	c.(934-936)GGC>GGT	p.G312G	NUDT12_uc011cvb.1_Silent_p.G294G	NM_031438	NP_113626	Q9BQG2	NUD12_HUMAN	nudix-type motif 12	312						nucleus|peroxisome	metal ion binding|NAD+ diphosphatase activity				0		all_cancers(142;6.38e-08)|all_epithelial(76;1.99e-10)|Prostate(80;0.0138)|Lung NSC(167;0.0212)|Colorectal(57;0.0247)|all_lung(232;0.0283)|Ovarian(225;0.0423)		Epithelial(69;9.3e-13)|COAD - Colon adenocarcinoma(37;0.0221)		TATTATGGACGCCATTGAGAC	0.378													9	82					0	0	0.006214	0	0	
APC	324	broad.mit.edu	37	5	112137021	112137021	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:112137021C>T	uc010jby.2	+	8	1155	c.775C>T	c.(775-777)CGG>TGG	p.R259W	APC_uc011cvt.1_Missense_Mutation_p.R241W|APC_uc003kpz.3_Missense_Mutation_p.R259W|APC_uc003kpy.3_Missense_Mutation_p.R259W|APC_uc010jbz.2_5'UTR	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	259	Leu-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity			large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		TGATGCTGAGCGGCAGAATGA	0.363		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			13	36					0	0	0.004990	0	0	
REEP5	7905	broad.mit.edu	37	5	112257795	112257795	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:112257795G>A	uc003kqe.1	-	1	237	c.93C>T	c.(91-93)GGC>GGT	p.G31G	REEP5_uc011cvw.1_5'Flank|REEP5_uc011cvx.1_RNA|REEP5_uc011cvy.1_Silent_p.G31G|REEP5_uc011cvz.1_RNA	NM_005669	NP_005660	Q00765	REEP5_HUMAN	receptor accessory protein 5	31						integral to membrane	protein binding				0		all_cancers(142;4.41e-05)|all_epithelial(76;3.65e-07)|Colorectal(10;0.00115)|Prostate(80;0.00133)|Ovarian(225;0.0443)		Epithelial(69;1.3e-09)|OV - Ovarian serous cystadenocarcinoma(64;1.26e-08)|all cancers(49;3.56e-07)|Colorectal(14;0.00778)|COAD - Colon adenocarcinoma(37;0.013)		TCCTGTTCACGCCGGTTTTGG	0.662													4	13					0	0	0.000602	0	0	
AQPEP	206338	broad.mit.edu	37	5	115338603	115338603	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:115338603G>A	uc003kro.2	+	11	2056	c.1892G>A	c.(1891-1893)AGC>AAC	p.S631N	AQPEP_uc003krp.2_RNA|AQPEP_uc003krq.2_RNA|AQPEP_uc003krr.2_RNA|AQPEP_uc003krs.2_RNA	NM_173800	NP_776161	Q6Q4G3	AMPQ_HUMAN	laeverin	631	Lumenal (Potential).				proteolysis	integral to membrane	metallopeptidase activity|zinc ion binding				0						CTAGATCAAAGCAGCAGTAAG	0.294													6	24					0	0	0.001168	0	0	
SEMA6A	57556	broad.mit.edu	37	5	115783256	115783256	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:115783256C>A	uc010jck.2	-	19	2855	c.2146G>T	c.(2146-2148)GAC>TAC	p.D716Y	SEMA6A_uc003krx.3_Missense_Mutation_p.D733Y|SEMA6A_uc011cwe.1_Missense_Mutation_p.D95Y|SEMA6A_uc003krv.3_Missense_Mutation_p.D143Y|SEMA6A_uc003krw.3_Missense_Mutation_p.D193Y|SEMA6A_uc010jcj.2_Missense_Mutation_p.D260Y	NM_020796	NP_065847	Q9H2E6	SEM6A_HUMAN	sema domain, transmembrane domain (TM), and	716	Cytoplasmic (Potential).				apoptosis|axon guidance|cell surface receptor linked signaling pathway|cytoskeleton organization|organ morphogenesis	axon|integral to membrane|plasma membrane	receptor activity			ovary(2)	2		all_cancers(142;0.00316)|all_epithelial(76;5.71e-05)|Prostate(80;0.00845)|Ovarian(225;0.0796)|Lung NSC(810;0.171)|all_lung(232;0.203)		OV - Ovarian serous cystadenocarcinoma(64;1.59e-08)|Epithelial(69;2e-08)|all cancers(49;5.7e-08)|COAD - Colon adenocarcinoma(49;0.151)		GGCTTTGGGTCTTTGGATTGA	0.612													21	73					7.45023e-12	8.05501e-12	0.010504	1	0	
FTMT	94033	broad.mit.edu	37	5	121188112	121188112	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:121188112G>A	uc003kss.2	+	1	463	c.454G>A	c.(454-456)GAC>AAC	p.D152N		NM_177478	NP_803431	Q8N4E7	FTMT_HUMAN	ferritin mitochondrial precursor	152	Ferritin-like diiron.				cellular iron ion homeostasis|iron ion transport|positive regulation of cell proliferation|positive regulation of lyase activity|positive regulation of oxidoreductase activity|positive regulation of transferase activity	mitochondrion	ferric iron binding|ferroxidase activity			ovary(1)	1		all_cancers(142;0.0124)|Prostate(80;0.0322)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	Epithelial(69;0.000171)|OV - Ovarian serous cystadenocarcinoma(64;0.000188)|all cancers(49;0.0027)		GGAACAGGACGACTGGGAAAG	0.587													16	57					0	0	0.006122	0	0	
SNCAIP	9627	broad.mit.edu	37	5	121761189	121761189	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:121761189A>C	uc003ksw.1	+	5	1351	c.1145A>C	c.(1144-1146)AAC>ACC	p.N382T	SNCAIP_uc011cwl.1_Intron|SNCAIP_uc010jct.2_Missense_Mutation_p.N382T|SNCAIP_uc003ksx.1_Missense_Mutation_p.N429T|SNCAIP_uc003ksy.1_Intron|SNCAIP_uc003ksz.1_Intron|SNCAIP_uc010jcu.2_Intron|SNCAIP_uc011cwm.1_Intron|SNCAIP_uc003kta.1_Intron|SNCAIP_uc010jcv.1_RNA|SNCAIP_uc010jcw.1_Missense_Mutation_p.N76T|SNCAIP_uc010jcx.1_Intron	NM_005460	NP_005451	Q9Y6H5	SNCAP_HUMAN	synuclein alpha interacting protein	382					cell death|dopamine metabolic process|regulation of inclusion body assembly|regulation of neurotransmitter secretion	cytoplasm|neuronal cell body|nucleolus|presynaptic membrane	ubiquitin protein ligase binding			ovary(1)|pancreas(1)	2		all_cancers(142;0.00787)|Prostate(80;0.0327)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000625)|Epithelial(69;0.00216)|all cancers(49;0.0232)		AATGAGCGCAACACTGAGAAG	0.483													18	70					0	0	0.010504	0	0	
CSNK1G3	1456	broad.mit.edu	37	5	122950080	122950080	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:122950080G>A	uc003ktm.2	+	13	2053	c.1334G>A	c.(1333-1335)CGC>CAC	p.R445H	CSNK1G3_uc003ktl.2_Missense_Mutation_p.R453H|CSNK1G3_uc003ktn.2_Missense_Mutation_p.R421H|CSNK1G3_uc003kto.2_Missense_Mutation_p.R413H|CSNK1G3_uc011cwr.1_Missense_Mutation_p.R346H|CSNK1G3_uc011cws.1_Missense_Mutation_p.R309H|CSNK1G3_uc010jda.2_Missense_Mutation_p.R422H	NM_004384	NP_004375	Q9Y6M4	KC1G3_HUMAN	casein kinase 1, gamma 3 isoform 1	445					Wnt receptor signaling pathway	cytoplasm	ATP binding|protein serine/threonine kinase activity				0		all_cancers(142;0.0156)|Prostate(80;0.0322)|Lung NSC(810;0.245)	KIRC - Kidney renal clear cell carcinoma(527;0.165)|Kidney(363;0.229)	OV - Ovarian serous cystadenocarcinoma(64;0.000121)|Epithelial(69;0.000227)|all cancers(49;0.00176)		ACCATACAGCGCCACAAATGA	0.383													18	70					0	0	0.001882	0	0	
ZNF608	57507	broad.mit.edu	37	5	123984239	123984239	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:123984239C>T	uc003ktq.1	-	4	1961	c.1838G>A	c.(1837-1839)AGC>AAC	p.S613N	ZNF608_uc003ktr.1_Intron|ZNF608_uc003kts.1_Missense_Mutation_p.S613N|ZNF608_uc003ktt.1_Missense_Mutation_p.S613N	NM_020747	NP_065798	Q9ULD9	ZN608_HUMAN	zinc finger protein 608	613						intracellular	zinc ion binding			skin(3)|ovary(2)|lung(1)	6		all_cancers(142;0.186)|Prostate(80;0.081)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.00126)|Epithelial(69;0.00238)|all cancers(49;0.00783)		TACACTTGTGCTTGGCTCACT	0.522													10	53					0	0	0.006214	0	0	
C5orf48	389320	broad.mit.edu	37	5	125971793	125971793	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:125971793C>T	uc003kub.1	+	3	278	c.265C>T	c.(265-267)CTT>TTT	p.L89F		NM_207408	NP_997291	Q6ZNM6	CE048_HUMAN	hypothetical protein LOC389320	89										ovary(1)	1						CAGTGAAAGGCTTTGCCATGG	0.423													7	167					0	0	0.004482	0	0	
MEGF10	84466	broad.mit.edu	37	5	126755870	126755870	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:126755870C>T	uc003kuh.3	+	13	1923	c.1561C>T	c.(1561-1563)CGC>TGC	p.R521C	MEGF10_uc010jdc.1_Missense_Mutation_p.R521C|MEGF10_uc010jdd.1_Missense_Mutation_p.R521C|MEGF10_uc003kui.3_Missense_Mutation_p.R521C	NM_032446	NP_115822	Q96KG7	MEG10_HUMAN	multiple EGF-like-domains 10 precursor	521	Extracellular (Potential).|EGF-like 9.|Necessary for interaction with AP2M1, self-assembly and formation of the irregular, mosaic-like adhesion pattern.				cell adhesion|phagocytosis	basolateral plasma membrane|cell projection|integral to membrane|phagocytic cup				ovary(4)	4		Prostate(80;0.165)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0657)|Epithelial(69;0.123)		ACCTGGATGGCGCGGGGAGAA	0.557													13	25					0	0	0.003163	0	0	
FBN2	2201	broad.mit.edu	37	5	127668686	127668686	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:127668686C>T	uc003kuu.2	-	32	4579	c.4140G>A	c.(4138-4140)ATG>ATA	p.M1380I	FBN2_uc003kuv.2_Missense_Mutation_p.M1347I	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	1380	EGF-like 22; calcium-binding.				bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		ATGAGGCATGCATGTCGCAGT	0.383													11	117					0	0	0.000978	0	0	
FBN2	2201	broad.mit.edu	37	5	127685073	127685073	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:127685073G>A	uc003kuu.2	-	23	3394	c.2955C>T	c.(2953-2955)GGC>GGT	p.G985G	FBN2_uc003kuv.2_Silent_p.G952G	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	985	EGF-like 14; calcium-binding.				bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		CCAACGTAAGGCCTTCAGGGC	0.458													14	41					0	0	0.002450	0	0	
RAPGEF6	51735	broad.mit.edu	37	5	130764881	130764881	+	Silent	SNP	G	A	A	rs144023710		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:130764881G>A	uc003kvn.1	-	27	4700	c.4494C>T	c.(4492-4494)GAC>GAT	p.D1498D	RAPGEF6_uc003kvp.1_Silent_p.D1548D|RAPGEF6_uc003kvo.1_Intron|RAPGEF6_uc010jdi.1_Silent_p.D1506D|RAPGEF6_uc010jdj.1_Intron|RAPGEF6_uc003kvm.1_Silent_p.D421D	NM_016340	NP_057424	Q8TEU7	RPGF6_HUMAN	PDZ domain-containing guanine nucleotide	1498					Ras protein signal transduction|regulation of GTPase activity|regulation of small GTPase mediated signal transduction	cytoplasm|plasma membrane	GTP-dependent protein binding|guanyl-nucleotide exchange factor activity|Ras GTPase binding			ovary(1)|lung(1)|central_nervous_system(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Lung(113;0.0721)		TATACCTATCGTCCTTCTTGG	0.433													11	74					0	0	0.000978	0	0	
P4HA2	8974	broad.mit.edu	37	5	131534590	131534590	+	Silent	SNP	C	T	T	rs141851075		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:131534590C>T	uc003kwh.2	-	11	1851	c.1287G>A	c.(1285-1287)CCG>CCA	p.P429P	P4HA2_uc003kwg.2_Silent_p.P429P|P4HA2_uc003kwi.2_Silent_p.P429P|P4HA2_uc003kwk.2_Silent_p.P429P|P4HA2_uc003kwl.2_Silent_p.P429P|P4HA2_uc003kwj.2_Silent_p.P429P	NM_004199	NP_004190	O15460	P4HA2_HUMAN	prolyl 4-hydroxylase, alpha II subunit isoform 1	429	Fe2OG dioxygenase.					endoplasmic reticulum lumen	electron carrier activity|iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 4-dioxygenase activity|protein binding				0		all_cancers(142;0.103)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		L-Proline(DB00172)|Succinic acid(DB00139)	AGTCGAAGTGCGGTTCATACT	0.483													8	36					0	0	0.006214	0	0	
SLC22A4	6583	broad.mit.edu	37	5	131647916	131647916	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:131647916C>T	uc003kwq.2	+	2	621	c.456C>T	c.(454-456)GGC>GGT	p.G152G	SLC22A4_uc010jdq.1_RNA|uc003kwr.3_RNA	NM_003059	NP_003050	Q9H015	S22A4_HUMAN	solute carrier family 22 member 4	152	Helical; Name=2; (Potential).				body fluid secretion|sodium ion transport	apical plasma membrane|integral to plasma membrane|mitochondrion	ATP binding|carnitine transporter activity|cation:cation antiporter activity|PDZ domain binding|secondary active organic cation transmembrane transporter activity|symporter activity				0		all_cancers(142;0.0752)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		L-Carnitine(DB00583)	TCTTCGTAGGCGTGCTCCTCG	0.587													10	114					0	0	0.006214	0	0	
KIF3A	11127	broad.mit.edu	37	5	132052617	132052617	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:132052617T>A	uc003kxo.2	-	6	830	c.676A>T	c.(676-678)ATT>TTT	p.I226F	KIF3A_uc003kxn.2_Missense_Mutation_p.I185F|KIF3A_uc011cxf.1_Missense_Mutation_p.I226F|KIF3A_uc003kxp.2_Missense_Mutation_p.I226F	NM_007054	NP_008985	Q9Y496	KIF3A_HUMAN	kinesin family member 3A	226	Kinesin-motor.				blood coagulation|organelle organization|plus-end-directed vesicle transport along microtubule	centrosome|cytosol|kinesin II complex|spindle microtubule	ATP binding|plus-end-directed microtubule motor activity|protein binding			pancreas(1)	1		all_cancers(142;0.0751)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TCTATAGTAATTGTAAAGATG	0.383													38	97					0	0	0.004878	0	0	
CCNI2	645121	broad.mit.edu	37	5	132086668	132086668	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:132086668G>A	uc003kxq.1	+	4	804	c.753G>A	c.(751-753)ACG>ACA	p.T251T	CCNI2_uc011cxg.1_Silent_p.T251T|CCNI2_uc011cxh.1_Silent_p.T252T|SEPT8_uc003kxr.2_3'UTR	NM_001039780	NP_001034869	Q6ZMN8	CCNI2_HUMAN	cyclin I family, member 2	251					regulation of cyclin-dependent protein kinase activity		protein kinase binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			ATATTGGGACGCCGCTGGACT	0.488													16	88					0	0	0.001882	0	0	
PPP2CA	5515	broad.mit.edu	37	5	133537696	133537696	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:133537696C>T	uc003kze.2	-	3	727	c.329G>A	c.(328-330)CGC>CAC	p.R110H		NM_002715	NP_002706	P67775	PP2AA_HUMAN	protein phosphatase 2, catalytic subunit, alpha	110					ceramide metabolic process|inactivation of MAPK activity|induction of apoptosis|meiosis|negative regulation of cell growth|negative regulation of epithelial to mesenchymal transition|negative regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of protein serine/threonine kinase activity|protein dephosphorylation|regulation of cell adhesion|regulation of DNA replication|regulation of transcription, DNA-dependent|regulation of Wnt receptor signaling pathway|response to organic substance|RNA splicing|second-messenger-mediated signaling	chromosome, centromeric region|cytosol|mitochondrion|nucleus|protein phosphatase type 2A complex|soluble fraction|spindle pole	metal ion binding|phosphoprotein phosphatase activity			ovary(2)|lung(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		Vitamin E(DB00163)	AATGGTGATGCGTTCACGGTA	0.323													17	63					0	0	0.007413	0	0	
C5orf20	140947	broad.mit.edu	37	5	134782488	134782488	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:134782488G>A	uc003lav.2	-	1	551	c.311C>T	c.(310-312)GCG>GTG	p.A104V		NM_130848	NP_570900	Q8TF63	DCNP1_HUMAN	dendritic cell nuclear protein 1	104						nucleus					0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			TGAGGGCCTCGCAGATGCTTC	0.572													27	73					0	0	0.007291	0	0	
LOC153328	153328	broad.mit.edu	37	5	135188321	135188321	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:135188321G>A	uc003laz.1	+	4	404	c.232G>A	c.(232-234)GGG>AGG	p.G78R	LOC153328_uc003lba.2_Missense_Mutation_p.G78R			Q6ZT89	S2548_HUMAN	RecName: Full=Putative mitochondrial carrier protein FLJ44862;	78	Solcar 1.|Helical; Name=2; (Potential).				transmembrane transport	integral to membrane|mitochondrial inner membrane	binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			CGTGGTGTTTGGGGTCTTCAG	0.607													4	93					0	0	0.000602	0	0	
TRPC7	57113	broad.mit.edu	37	5	135551934	135551934	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:135551934G>A	uc003lbn.1	-	10	2373	c.2370C>T	c.(2368-2370)TAC>TAT	p.Y790Y	TRPC7_uc010jef.1_Silent_p.Y727Y|TRPC7_uc010jeg.1_RNA|TRPC7_uc010jeh.1_Silent_p.Y721Y|TRPC7_uc010jei.1_Silent_p.Y666Y|TRPC7_uc010jej.1_Silent_p.Y342Y	NM_020389	NP_065122	Q9HCX4	TRPC7_HUMAN	transient receptor potential cation channel,	791	Cytoplasmic (Potential).				axon guidance|platelet activation	integral to membrane|plasma membrane	calcium channel activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			CTTTCAGGACGTATCTTTTTA	0.468													4	22					0	0	0.009096	0	0	
NME5	8382	broad.mit.edu	37	5	137454523	137454523	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:137454523T>G	uc003lce.2	-	5	617	c.539A>C	c.(538-540)AAA>ACA	p.K180T	BRD8_uc003lcc.1_Intron	NM_003551	NP_003542	P56597	NDK5_HUMAN	non-metastatic cells 5, protein expressed in	180					anti-apoptosis|CTP biosynthetic process|GTP biosynthetic process|multicellular organismal development|spermatid development|UTP biosynthetic process		ATP binding|nucleoside diphosphate kinase activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			ATCTGCTGGTTTTTGCTTACA	0.269													5	43					0	0	0.001168	0	0	
CDC23	8697	broad.mit.edu	37	5	137527970	137527970	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:137527970G>A	uc003lcl.2	-	11	1305	c.1274C>T	c.(1273-1275)GCC>GTC	p.A425V		NM_004661	NP_004652	Q9UJX2	CDC23_HUMAN	cell division cycle protein 23	425	TPR 7.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|G1 phase of mitotic cell cycle|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase plate congression|mitotic metaphase/anaphase transition|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination|regulation of exit from mitosis	anaphase-promoting complex|cytosol|nucleoplasm	binding|ubiquitin-protein ligase activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			AAGCTGGTGGGCCCGTCTATA	0.433													20	46					0	0	0.001882	0	0	
CDC25C	995	broad.mit.edu	37	5	137621809	137621809	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:137621809G>A	uc003lcp.1	-	13	1445	c.1174C>T	c.(1174-1176)CGT>TGT	p.R392C	CDC25C_uc003lcq.1_Missense_Mutation_p.R319C|CDC25C_uc003lcr.1_Missense_Mutation_p.R392C|CDC25C_uc011cyp.1_Missense_Mutation_p.R409C|CDC25C_uc003lcs.1_Missense_Mutation_p.R470C	NM_001790	NP_001781	P30307	MPIP3_HUMAN	cell division cycle 25C isoform a	392	Rhodanese.				cell cycle checkpoint|cell division|cell proliferation|DNA replication|G2/M transition of mitotic cell cycle|interspecies interaction between organisms|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of mitosis|traversing start control point of mitotic cell cycle	cytosol|nucleoplasm	protein tyrosine phosphatase activity|WW domain binding			lung(3)	3			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			TCCTCTTCACGCAGACAGCGG	0.517													16	74					0	0	0.006122	0	0	
REEP2	51308	broad.mit.edu	37	5	137776765	137776765	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:137776765C>T	uc003lcz.2	+	2	215	c.93C>T	c.(91-93)AAC>AAT	p.N31N	REEP2_uc003lda.2_Silent_p.N31N|REEP2_uc011cyt.1_Translation_Start_Site	NM_016606	NP_057690	Q9BRK0	REEP2_HUMAN	receptor accessory protein 2	31						integral to membrane					0			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			AGACAAAAAACGTGAAGGAAT	0.547													15	44					0	0	0.006122	0	0	
ETF1	2107	broad.mit.edu	37	5	137848611	137848611	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:137848611G>A	uc003ldc.3	-	6	739	c.574C>T	c.(574-576)CGT>TGT	p.R192C	ETF1_uc011cyv.1_Missense_Mutation_p.R178C|ETF1_uc010jex.2_RNA|ETF1_uc003ldd.3_Missense_Mutation_p.R159C|ETF1_uc010jey.1_5'UTR	NM_004730	NP_004721	P62495	ERF1_HUMAN	eukaryotic translation termination factor 1	192					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|protein methylation|regulation of translational termination	cytoplasm	protein binding|ribosome binding|translation release factor activity, codon specific			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			ATTCTTAAACGGGCAAAACGC	0.403													23	61					0	0	0.003330	0	0	
CXXC5	51523	broad.mit.edu	37	5	139060723	139060723	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:139060723G>A	uc010jfg.1	+	2	905	c.615G>A	c.(613-615)CAG>CAA	p.Q205Q	CXXC5_uc003let.2_Silent_p.Q205Q	NM_016463	NP_057547	Q7LFL8	CXXC5_HUMAN	CXXC finger 5	205					positive regulation of I-kappaB kinase/NF-kappaB cascade	cytoplasm|nucleus	DNA binding|signal transducer activity|zinc ion binding			central_nervous_system(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCAATGGCCAGTCCGACTTCC	0.652													8	22					0	0	0.003080	0	0	
ANKHD1-EIF4EBP3	404734	broad.mit.edu	37	5	139908009	139908009	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:139908009G>A	uc003lfs.1	+	29	5602	c.5478G>A	c.(5476-5478)CAG>CAA	p.Q1826Q	ANKHD1_uc003lfr.2_Silent_p.Q1826Q|ANKHD1-EIF4EBP3_uc011czh.1_Silent_p.Q565Q|ANKHD1_uc003lfw.2_Silent_p.Q464Q|ANKHD1_uc010jfl.2_Silent_p.Q261Q|ANKHD1-EIF4EBP3_uc003lfx.1_5'UTR	NM_020690	NP_065741	Q8IWZ2	Q8IWZ2_HUMAN	ANKHD1-EIF4EBP3 protein	1826						cytoplasm|nucleus	RNA binding			ovary(6)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTACGTTCCAGCCCGCTAATA	0.438													4	152					0	0	0.000602	0	0	
SRA1	10011	broad.mit.edu	37	5	139930355	139930355	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:139930355G>A	uc003lga.2	-	5	1247	c.641C>T	c.(640-642)GCC>GTC	p.A214V	SRA1_uc003lfz.2_Missense_Mutation_p.A140V|SRA1_uc010jfm.2_Missense_Mutation_p.A140V	NM_001035235	NP_001030312	Q9HD15	SRA1_HUMAN	steroid receptor RNA activator 1	214					apoptosis|cell differentiation|cell proliferation|transcription, DNA-dependent	cytoplasm|ribonucleoprotein complex	receptor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTCTTCATTGGCTGCCTCCTC	0.498													8	64					0	0	0.004482	0	0	
ZMAT2	153527	broad.mit.edu	37	5	140085213	140085213	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140085213G>A	uc003lgy.1	+	6	486	c.472G>A	c.(472-474)GCG>ACG	p.A158T		NM_144723	NP_653324	Q96NC0	ZMAT2_HUMAN	zinc finger, matrin type 2	158						nucleus	DNA binding|zinc ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			aaaggccaaagcgtacaagaa	0.244													6	20					0	0	0.003080	0	0	
PCDHA1	56147	broad.mit.edu	37	5	140166015	140166015	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140166015G>A	uc003lhb.2	+	1	140	c.140G>A	c.(139-141)CGC>CAC	p.R47H	PCDHA1_uc003lha.2_Missense_Mutation_p.R47H|PCDHA1_uc003lgz.2_Missense_Mutation_p.R47H	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	47	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTCGTTGGCCGCGTTGCTCAG	0.632													4	52					0	0	0.000602	0	0	
PCDHA1	56147	broad.mit.edu	37	5	140167729	140167729	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140167729G>A	uc003lhb.2	+	1	1854	c.1854G>A	c.(1852-1854)GCG>GCA	p.A618A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lgz.2_Silent_p.A618A	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	618	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAGGCGGCGCGCGCATCCCGT	0.667													21	25					0	0	0.002780	0	0	
PCDHA2	56146	broad.mit.edu	37	5	140175845	140175845	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140175845G>A	uc003lhd.2	+	1	1402	c.1296G>A	c.(1294-1296)TCG>TCA	p.S432S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhc.1_Silent_p.S432S|PCDHA2_uc011czy.1_Silent_p.S432S	NM_018905	NP_061728	Q9Y5H9	PCDA2_HUMAN	protocadherin alpha 2 isoform 1 precursor	432	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACGGGGGCTCGCCTTCACTGT	0.627													14	46					0	0	0.001855	0	0	
PCDHA4	56144	broad.mit.edu	37	5	140188422	140188422	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140188422G>A	uc003lhi.2	+	1	1751	c.1650G>A	c.(1648-1650)ACG>ACA	p.T550T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Silent_p.T550T|PCDHA4_uc011daa.1_Silent_p.T550T	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	550	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCAACGTGACGCTGCAGGTGT	0.662													5	47					0	0	0.000602	0	0	
PCDHA5	56143	broad.mit.edu	37	5	140201540	140201540	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140201540G>A	uc003lhl.2	+	1	180	c.180G>A	c.(178-180)CCG>CCA	p.P60P	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Silent_p.P60P|PCDHA5_uc003lhj.1_Silent_p.P60P	NM_018908	NP_061731	Q9Y5H7	PCDA5_HUMAN	protocadherin alpha 5 isoform 1 precursor	60	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding	p.Q49fs*50(1)		ovary(1)|breast(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGCTGGTGCCGCGCCTGTTCC	0.632													14	42					0	0	0.008871	0	0	
PCDHA8	56140	broad.mit.edu	37	5	140222549	140222549	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140222549A>G	uc003lhs.2	+	1	1643	c.1643A>G	c.(1642-1644)AAC>AGC	p.N548S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Missense_Mutation_p.N548S	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	548	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGGGCAGCAACGTGACGCTG	0.687													16	53					0	0	0.002299	0	0	
PCDHA10	56139	broad.mit.edu	37	5	140237080	140237080	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140237080G>A	uc003lhx.2	+	1	1447	c.1447G>A	c.(1447-1449)GCG>ACG	p.A483T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Missense_Mutation_p.A483T|PCDHA10_uc011dad.1_Missense_Mutation_p.A483T	NM_018901	NP_061724	Q9Y5I2	PCDAA_HUMAN	protocadherin alpha 10 isoform 1 precursor	483	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)|breast(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGACGCGGACGCGCAGGAGAA	0.662													19	44					0	0	0.002780	0	0	
PCDHA10	56139	broad.mit.edu	37	5	140237425	140237425	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140237425G>A	uc003lhx.2	+	1	1792	c.1792G>A	c.(1792-1794)GCT>ACT	p.A598T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc011dad.1_Missense_Mutation_p.A598T	NM_018901	NP_061724	Q9Y5I2	PCDAA_HUMAN	protocadherin alpha 10 isoform 1 precursor	598	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)|breast(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGCAGTGGACGCTGACTCTGG	0.662													8	31					0	0	0.000978	0	0	
PCDHA11	56138	broad.mit.edu	37	5	140250178	140250178	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140250178G>A	uc003lia.2	+	1	2348	c.1490G>A	c.(1489-1491)CGG>CAG	p.R497Q	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Missense_Mutation_p.R497Q	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	497	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGGAGCGGCGGTTGGGCGAC	0.672													21	31					0	0	0.003330	0	0	
PCDHA12	56137	broad.mit.edu	37	5	140256328	140256328	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140256328T>C	uc003lic.2	+	1	1398	c.1271T>C	c.(1270-1272)GTG>GCG	p.V424A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc011daf.1_Missense_Mutation_p.V424A	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	424	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TATGAGCTGGTGGTGACTGCG	0.632													6	151					0	0	0.003080	0	0	
PCDHA12	56137	broad.mit.edu	37	5	140256730	140256730	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140256730A>T	uc003lic.2	+	1	1800	c.1673A>T	c.(1672-1674)GAG>GTG	p.E558V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc011daf.1_Missense_Mutation_p.E558V	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	558	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGCTGGACGAGAACGACAAC	0.701													17	64					0	0	0.010504	0	0	
PCDHA13	56136	broad.mit.edu	37	5	140261998	140261998	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140261998G>A	uc003lif.2	+	1	145	c.145G>A	c.(145-147)GCT>ACT	p.A49T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Missense_Mutation_p.A49T|PCDHA13_uc003lid.2_Missense_Mutation_p.A49T	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	49	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGCCGCATCGCTCAGGACCT	0.642													6	40					0	0	0.006214	0	0	
PCDHAC1	56135	broad.mit.edu	37	5	140307066	140307066	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140307066G>A	uc003lih.2	+	1	765	c.589G>A	c.(589-591)GCC>ACC	p.A197T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lig.1_Missense_Mutation_p.A197T	NM_018898	NP_061721	Q9H158	PCDC1_HUMAN	protocadherin alpha subfamily C, 1 isoform 1	197	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGAACAGCGCGCCACCCACCT	0.607													8	20					0	0	0.003080	0	0	
PCDHAC1	56135	broad.mit.edu	37	5	140307389	140307389	+	Silent	SNP	G	A	A	rs112037348	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140307389G>A	uc003lih.2	+	1	1088	c.912G>A	c.(910-912)ACG>ACA	p.T304T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lig.1_Silent_p.T304T	NM_018898	NP_061721	Q9H158	PCDC1_HUMAN	protocadherin alpha subfamily C, 1 isoform 1	304	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGCCTGAAACGCTCTTGGAGG	0.557													10	97					0	0	0.006214	0	0	
PCDHAC2	56134	broad.mit.edu	37	5	140347212	140347212	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140347212C>T	uc003lii.2	+	1	1101	c.861C>T	c.(859-861)GGC>GGT	p.G287G	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lih.2_Intron|PCDHAC2_uc011dag.1_Silent_p.G287G	NM_018899	NP_061722	Q9Y5I4	PCDC2_HUMAN	protocadherin alpha subfamily C, 2 isoform 1	287	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGGATGAGGGCTCCAATGGTG	0.582													9	30					0	0	0.004482	0	0	
PCDHB2	56133	broad.mit.edu	37	5	140475246	140475246	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140475246G>A	uc003lil.2	+	1	1010	c.872G>A	c.(871-873)CGC>CAC	p.R291H	PCDHB2_uc003lim.1_5'UTR	NM_018936	NP_061759	Q9Y5E7	PCDB2_HUMAN	protocadherin beta 2 precursor	291	Extracellular (Potential).|Cadherin 3.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(3)|upper_aerodigestive_tract(2)|pancreas(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GAAGACATTCGCAAAACGTTT	0.423													8	94					0	0	0.004482	0	0	
PCDHB3	56132	broad.mit.edu	37	5	140481651	140481651	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140481651T>C	uc003lio.2	+	1	1418	c.1418T>C	c.(1417-1419)GTC>GCC	p.V473A	uc003lin.2_Intron	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	473	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ATCGGCAGTGTCAGCGCCACA	0.637													26	59					0	0	0.002445	0	0	
PCDHB3	56132	broad.mit.edu	37	5	140481683	140481683	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140481683G>A	uc003lio.2	+	1	1450	c.1450G>A	c.(1450-1452)GCC>ACC	p.A484T	uc003lin.2_Intron	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	484	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGGCACCAACGCCCAGGTAAC	0.632													29	57					0	0	0.002836	0	0	
PCDHB7	56129	broad.mit.edu	37	5	140554671	140554671	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140554671G>A	uc003lit.2	+	1	2429	c.2255G>A	c.(2254-2256)TGC>TAC	p.C752Y	PCDHB8_uc011dai.1_5'Flank	NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	752	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TATGAGGTGTGCCTGACTGGA	0.582													13	127					0	0	0.003163	0	0	
PCDHB8	56128	broad.mit.edu	37	5	140558562	140558562	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140558562A>G	uc011dai.1	+	1	1133	c.947A>G	c.(946-948)TAT>TGT	p.Y316C	PCDHB16_uc003liv.2_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	316	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TTTCAGTCCTATGAAGTCAAT	0.403													4	283					0	0	0.001168	0	0	
PCDHB8	56128	broad.mit.edu	37	5	140559017	140559017	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140559017G>A	uc011dai.1	+	1	1588	c.1402G>A	c.(1402-1404)GCC>ACC	p.A468T	PCDHB16_uc003liv.2_5'Flank|PCDHB16_uc010jfw.1_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	468	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CAACAGCCCCGCCCTGCACAT	0.637													16	95					0	0	0.004656	0	0	
PCDHB16	57717	broad.mit.edu	37	5	140563922	140563922	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140563922G>A	uc003liv.2	+	1	2943	c.1788G>A	c.(1786-1788)TCG>TCA	p.S596S	PCDHB9_uc003liw.1_5'Flank	NM_020957	NP_066008	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16 precursor	596	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ACGGCGACTCGGGCCAGAATG	0.716													11	15					0	0	0.001855	0	0	
PCDHB9	56127	broad.mit.edu	37	5	140568423	140568423	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140568423G>A	uc003liw.1	+	3	1532	c.1532G>A	c.(1531-1533)GGC>GAC	p.G511D		NM_019119	NP_061992	Q9Y5E1	PCDB9_HUMAN	protocadherin beta 9 precursor	511	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCGGACAATGGCCACCTGTTT	0.672													13	120					0	0	0.004990	0	0	
PCDHB9	56127	broad.mit.edu	37	5	140569104	140569104	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140569104A>G	uc003liw.1	+	3	2213	c.2213A>G	c.(2212-2214)GAC>GGC	p.D738G	PCDHB10_uc003lix.2_5'Flank	NM_019119	NP_061992	Q9Y5E1	PCDB9_HUMAN	protocadherin beta 9 precursor	738	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CATCTGGTGGACGTGAGCGGC	0.637													19	77					0	0	0.003954	0	0	
PCDHB11	56125	broad.mit.edu	37	5	140581476	140581476	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140581476C>T	uc003liy.2	+	1	2129	c.2129C>T	c.(2128-2130)GCG>GTG	p.A710V	PCDHB11_uc011daj.1_Missense_Mutation_p.A345V	NM_018931	NP_061754	Q9Y5F2	PCDBB_HUMAN	protocadherin beta 11 precursor	710	Helical; (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTGTTCGTGGCGGTGCGGCTG	0.687													12	92					0	0	0.003163	0	0	
PCDHB11	56125	broad.mit.edu	37	5	140581505	140581505	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140581505G>A	uc003liy.2	+	1	2158	c.2158G>A	c.(2158-2160)GCC>ACC	p.A720T	PCDHB11_uc011daj.1_Missense_Mutation_p.A355T	NM_018931	NP_061754	Q9Y5F2	PCDBB_HUMAN	protocadherin beta 11 precursor	720	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GAGCAGGGCGGCCTCGGTGGG	0.652													10	105					0	0	0.006214	0	0	
PCDHB12	56124	broad.mit.edu	37	5	140589821	140589821	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140589821G>A	uc003liz.2	+	1	1531	c.1342G>A	c.(1342-1344)GCC>ACC	p.A448T	PCDHB12_uc011dak.1_Missense_Mutation_p.A111T	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	448	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CAATGACAACGCCCCCGCCTT	0.602													7	141					0	0	0.001984	0	0	
PCDHB14	56122	broad.mit.edu	37	5	140604673	140604673	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140604673C>T	uc003ljb.2	+	1	1596	c.1596C>T	c.(1594-1596)GGC>GGT	p.G532G	PCDHB14_uc011dal.1_Silent_p.G379G	NM_018934	NP_061757	Q9Y5E9	PCDBE_HUMAN	protocadherin beta 14 precursor	532	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TTCGCGTGGGCGCCACAGACC	0.667													9	71					0	0	0.006214	0	0	
PCDHB14	56122	broad.mit.edu	37	5	140605138	140605138	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140605138C>T	uc003ljb.2	+	1	2061	c.2061C>T	c.(2059-2061)ACC>ACT	p.T687T	PCDHB14_uc011dal.1_Silent_p.T534T	NM_018934	NP_061757	Q9Y5E9	PCDBE_HUMAN	protocadherin beta 14 precursor	687	Helical; (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ACTCCCTCACCGTCTACCTGG	0.706													17	58					0	0	0.001882	0	0	
PCDHB18	54660	broad.mit.edu	37	5	140615770	140615770	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140615770C>T	uc003ljc.1	+	1	1833	c.1485C>T	c.(1483-1485)CGC>CGT	p.R495R		NR_001281				SubName: Full=Similar to protocadherin-3 (Pcdh3);											ovary(1)	1						TGCTGGTGCGCGTGCTGGTGC	0.701													7	27					0	0	0.003080	0	0	
TAF7	6879	broad.mit.edu	37	5	140699196	140699196	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140699196G>A	uc003ljg.2	-	1	1156	c.416C>T	c.(415-417)CCT>CTT	p.P139L		NM_005642	NP_005633	Q15545	TAF7_HUMAN	TATA box-binding protein-associated factor 2F	139					negative regulation of histone acetylation|negative regulation of protein kinase activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|spermine transport|transcription initiation from RNA polymerase II promoter	Golgi apparatus|MLL1 complex|transcription factor TFIID complex|transcription factor TFTC complex	histone acetyltransferase binding|thyroid hormone receptor binding|transcription coactivator activity|transcription regulatory region DNA binding|vitamin D receptor binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATTCTTTAGAGGCAGAGTAAT	0.408													31	131					0	0	0.009535	0	0	
PCDHGA1	56114	broad.mit.edu	37	5	140710396	140710396	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140710396G>A	uc003lji.1	+	1	145	c.145G>A	c.(145-147)GCC>ACC	p.A49T	PCDHGA1_uc011dan.1_Missense_Mutation_p.A49T	NM_018912	NP_061735	Q9Y5H4	PCDG1_HUMAN	protocadherin gamma subfamily A, 1 isoform 1	49	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|breast(1)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGGCAACATCGCCAAGGACCT	0.557													35	88					0	0	0.005524	0	0	
PCDHGA5	56110	broad.mit.edu	37	5	140745824	140745824	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140745824G>A	uc003lju.1	+	1	1927	c.1927G>A	c.(1927-1929)GTG>ATG	p.V643M	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc011das.1_Missense_Mutation_p.V643M	NM_018918	NP_061741	Q9Y5G8	PCDG5_HUMAN	protocadherin gamma subfamily A, 5 isoform 1	643	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCAGAGCCTCGTGGTGGCCGT	0.662													16	70					0	0	0.003954	0	0	
PCDHGA5	56110	broad.mit.edu	37	5	140746261	140746261	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140746261C>T	uc003lju.1	+	1	2364	c.2364C>T	c.(2362-2364)AGC>AGT	p.S788S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc011das.1_Silent_p.S788S	NM_018918	NP_061741	Q9Y5G8	PCDG5_HUMAN	protocadherin gamma subfamily A, 5 isoform 1	788	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGAGAAAAGCGAGCCTCTTC	0.488													22	117					0	0	0.002299	0	0	
PCDHGA7	56108	broad.mit.edu	37	5	140762959	140762959	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140762959A>G	uc003lka.1	+	1	493	c.493A>G	c.(493-495)AAC>GAC	p.N165D	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003ljz.1_Missense_Mutation_p.N165D	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	165	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGTGGGCACGAACTCCCTCCA	0.512													9	37					0	0	0.006214	0	0	
PCDHGA9	56107	broad.mit.edu	37	5	140784212	140784212	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140784212C>T	uc003lkh.1	+	1	1693	c.1693C>T	c.(1693-1695)CCT>TCT	p.P565S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc011dax.1_Missense_Mutation_p.P565S	NM_018921	NP_061744	Q9Y5G4	PCDG9_HUMAN	protocadherin gamma subfamily A, 9 isoform 1	565	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AATCCTGTACCCTGCCCTCCC	0.562													16	152					0	0	0.006122	0	0	
PCDHGA9	56107	broad.mit.edu	37	5	140784685	140784685	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140784685G>A	uc003lkh.1	+	1	2166	c.2166G>A	c.(2164-2166)TCG>TCA	p.S722S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc011dax.1_Silent_p.S722S	NM_018921	NP_061744	Q9Y5G4	PCDG9_HUMAN	protocadherin gamma subfamily A, 9 isoform 1	722	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCACTCCTCGCATCTGCTGC	0.577													23	53					0	0	0.002299	0	0	
PCDHGB6	56100	broad.mit.edu	37	5	140789114	140789114	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140789114G>A	uc003lkj.1	+	1	1345	c.1345G>A	c.(1345-1347)GCC>ACC	p.A449T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lki.1_Missense_Mutation_p.A449T	NM_018926	NP_061749	Q9Y5F9	PCDGI_HUMAN	protocadherin gamma subfamily B, 6 isoform 1	449	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAACGACAACGCCCCAGTTTT	0.567													10	30					0	0	0.008291	0	0	
PCDHGA10	56106	broad.mit.edu	37	5	140793053	140793053	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140793053C>T	uc003lkl.1	+	1	311	c.311C>T	c.(310-312)GCG>GTG	p.A104V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc011day.1_Missense_Mutation_p.A104V	NM_018913	NP_061736	Q9Y5H3	PCDGA_HUMAN	protocadherin gamma subfamily A, 10 isoform 1	104	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCTCAGAGCGCGCGGTGCGTG	0.517													5	104					0	0	0.000602	0	0	
PCDHGA12	26025	broad.mit.edu	37	5	140810542	140810542	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140810542G>A	uc003lkt.1	+	1	385	c.216G>A	c.(214-216)ACG>ACA	p.T72T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc011dba.1_Silent_p.T72T	NM_003735	NP_003726	O60330	PCDGC_HUMAN	protocadherin gamma subfamily A, 12 isoform 1	72	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAGGTAGGACGCAGCTTTTCG	0.637													15	74					0	0	0.006122	0	0	
PCDHGA12	26025	broad.mit.edu	37	5	140812003	140812003	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140812003G>A	uc003lkt.1	+	1	1846	c.1677G>A	c.(1675-1677)GCG>GCA	p.A559A	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc011dba.1_Silent_p.A559A	NM_003735	NP_003726	O60330	PCDGC_HUMAN	protocadherin gamma subfamily A, 12 isoform 1	559	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACGACAATGCGCCCGAGATCC	0.657													53	144					0	0	0.003610	0	0	
PCDHGC3	5098	broad.mit.edu	37	5	140857013	140857013	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:140857013C>T	uc003lkv.1	+	1	1445	c.1330C>T	c.(1330-1332)CGT>TGT	p.R444C	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc003lkt.1_Intron|PCDHGC3_uc003lku.1_Missense_Mutation_p.R444C|PCDHGC3_uc003lkw.1_Intron	NM_002588	NP_002579	Q9UN70	PCDGK_HUMAN	protocadherin gamma subfamily C, 3 isoform 1	444	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TACAATAGTGCGTGTTCAAGT	0.522													23	81					0	0	0.003954	0	0	
HDAC3	8841	broad.mit.edu	37	5	141005313	141005313	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:141005313G>A	uc003llf.2	-	13	1064	c.998C>T	c.(997-999)GCC>GTC	p.A333V	HDAC3_uc003lle.1_Missense_Mutation_p.A276V	NM_003883	NP_003874	O15379	HDAC3_HUMAN	histone deacetylase 3	333					anti-apoptosis|cellular lipid metabolic process|negative regulation of cell cycle|negative regulation of JNK cascade|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|spindle assembly|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|spindle microtubule|transcriptional repressor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|transcription corepressor activity|transcription factor binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Vorinostat(DB02546)	GAAGTCTGGGGCAAAGTACTC	0.493													14	47					0	0	0.006122	0	0	
KCTD16	57528	broad.mit.edu	37	5	143853254	143853254	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:143853254C>T	uc003lnm.1	+	4	1493	c.864C>T	c.(862-864)TGC>TGT	p.C288C	KCTD16_uc003lnn.1_Silent_p.C288C	NM_020768	NP_065819	Q68DU8	KCD16_HUMAN	potassium channel tetramerisation domain	288						cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			large_intestine(2)|ovary(1)|skin(1)	4		all_hematologic(541;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00111)|Kidney(363;0.00176)			CCTCACACTGCGATTGCTGCT	0.522													19	75					0	0	0.001882	0	0	
RBM27	54439	broad.mit.edu	37	5	145631338	145631338	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:145631338G>A	uc003lnz.3	+	9	1510	c.1344G>A	c.(1342-1344)CCG>CCA	p.P448P	RBM27_uc003lny.2_Intron	NM_018989	NP_061862	Q9P2N5	RBM27_HUMAN	RNA binding motif protein 27	448					mRNA processing	cytoplasm|nuclear speck	nucleotide binding|RNA binding|zinc ion binding			central_nervous_system(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TGGGGACACCGCCTCCTCTGT	0.552													46	94					0	0	0.003610	0	0	
JAKMIP2	9832	broad.mit.edu	37	5	147012252	147012252	+	Silent	SNP	T	C	C	rs75918574		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:147012252T>C	uc003loq.1	-	13	2149	c.1767A>G	c.(1765-1767)CTA>CTG	p.L589L	JAKMIP2_uc011dbx.1_Silent_p.L547L|JAKMIP2_uc003lor.1_Silent_p.L568L|uc003lop.1_Intron|JAKMIP2_uc010jgo.1_Silent_p.L589L	NM_014790	NP_055605	Q96AA8	JKIP2_HUMAN	janus kinase and microtubule interacting protein	589	Potential.					Golgi apparatus				large_intestine(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTTCTAGCTCTAGGTTTCGAA	0.274													17	160					0	0	0.008871	0	0	
HTR4	3360	broad.mit.edu	37	5	147889355	147889355	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:147889355C>A	uc003lpn.2	-	6	904	c.740G>T	c.(739-741)AGC>ATC	p.S247I	HTR4_uc010jgu.1_RNA|HTR4_uc003lpi.1_Missense_Mutation_p.S247I|HTR4_uc003lpj.1_Missense_Mutation_p.S247I|HTR4_uc003lpk.2_Missense_Mutation_p.S247I|HTR4_uc011dby.1_Missense_Mutation_p.S247I|HTR4_uc003lpl.2_Missense_Mutation_p.S261I|HTR4_uc003lpm.2_Missense_Mutation_p.S247I|HTR4_uc010jgv.2_RNA|HTR4_uc003lpo.1_Missense_Mutation_p.S247I	NM_000870	NP_000861	Q13639	5HT4R_HUMAN	serotonin 5-HT4 receptor isoform b	247	Cytoplasmic (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|positive regulation of cell proliferation	endosome|integral to plasma membrane|membrane fraction	serotonin receptor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Cisapride(DB00604)|Rizatriptan(DB00953)|Tegaserod(DB01079)|Zolmitriptan(DB00315)	GCGATGAGTGCTATGCTGGTC	0.542													10	35					0.000673444	0.000701807	0.008291	1	0	
PCYOX1L	78991	broad.mit.edu	37	5	148745609	148745609	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:148745609C>T	uc003lqk.2	+	4	637	c.575C>T	c.(574-576)GCT>GTT	p.A192V	PCYOX1L_uc003lql.2_Missense_Mutation_p.A175V|PCYOX1L_uc010jgz.2_Intron|PCYOX1L_uc003lqm.2_Missense_Mutation_p.A74V|PCYOX1L_uc003lqn.2_Missense_Mutation_p.A102V	NM_024028	NP_076933	Q8NBM8	PCYXL_HUMAN	prenylcysteine oxidase 1 like precursor	192					prenylcysteine catabolic process	extracellular region	oxidoreductase activity, acting on a sulfur group of donors, oxygen as acceptor			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CACTCTGTGGCTGAGTCCCTG	0.592													13	20					0	0	0.003163	0	0	
PCYOX1L	78991	broad.mit.edu	37	5	148747580	148747580	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:148747580C>T	uc003lqk.2	+	6	910	c.848C>T	c.(847-849)GCG>GTG	p.A283V	PCYOX1L_uc003lql.2_Missense_Mutation_p.A266V|PCYOX1L_uc010jgz.2_Missense_Mutation_p.A207V|PCYOX1L_uc003lqm.2_Missense_Mutation_p.A165V|PCYOX1L_uc003lqn.2_Missense_Mutation_p.A193V	NM_024028	NP_076933	Q8NBM8	PCYXL_HUMAN	prenylcysteine oxidase 1 like precursor	283					prenylcysteine catabolic process	extracellular region	oxidoreductase activity, acting on a sulfur group of donors, oxygen as acceptor			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TACCAGGTGGCGTATGAGAAT	0.522											OREG0016912	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	116					0	0	0.002450	0	0	
ARHGEF37	389337	broad.mit.edu	37	5	148980761	148980761	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:148980761G>T	uc003lra.1	+	3	341	c.277G>T	c.(277-279)GCC>TCC	p.A93S		NM_001001669	NP_001001669	A1IGU5	ARH37_HUMAN	hypothetical protein LOC389337	93	DH.				regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity				0						GCAGGAGACAGCCTCCAAGGA	0.468													6	78					0.00198382	0.00206202	0.001984	1	0	
PPARGC1B	133522	broad.mit.edu	37	5	149206304	149206304	+	Silent	SNP	C	T	T	rs141027780	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:149206304C>T	uc003lrc.2	+	3	363	c.321C>T	c.(319-321)GAC>GAT	p.D107D	PPARGC1B_uc003lrb.1_Silent_p.D107D|PPARGC1B_uc003lrd.2_Silent_p.D107D|PPARGC1B_uc003lrf.2_Silent_p.D86D|PPARGC1B_uc003lre.1_Silent_p.D86D	NM_133263	NP_573570	Q86YN6	PRGC2_HUMAN	peroxisome proliferator-activated receptor	107					estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter	mediator complex	AF-2 domain binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|receptor activator activity|RNA binding|RNA polymerase II transcription cofactor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			CTGAAGATGACGTGGGTCTGG	0.627													14	64					0	0	0.002450	0	0	
PDE6A	5145	broad.mit.edu	37	5	149242740	149242740	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:149242740G>A	uc003lrg.3	-	21	2568	c.2448C>T	c.(2446-2448)TAC>TAT	p.Y816Y		NM_000440	NP_000431	P16499	PDE6A_HUMAN	phosphodiesterase 6A	816					cytosolic calcium ion homeostasis|GMP metabolic process|platelet activation|signal transduction|visual perception	cytosol|plasma membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			TCTTGGCATCGTACTCATCAG	0.527													32	98					0	0	0.002836	0	0	
SLC26A2	1836	broad.mit.edu	37	5	149360038	149360038	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:149360038C>T	uc003lrh.2	+	3	1150	c.882C>T	c.(880-882)TTC>TTT	p.F294F		NM_000112	NP_000103	P50443	S26A2_HUMAN	solute carrier family 26 member 2	294	Extracellular (Potential).					integral to plasma membrane|membrane fraction	secondary active sulfate transmembrane transporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			TACATGTCTTCAGAAACATCC	0.433													20	78					0	0	0.001882	0	0	
CSF1R	1436	broad.mit.edu	37	5	149439266	149439266	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:149439266C>T	uc003lrl.2	-	14	2324	c.2129G>A	c.(2128-2130)CGC>CAC	p.R710H	CSF1R_uc011dcd.1_Intron|CSF1R_uc010jhc.2_Intron|CSF1R_uc003lrm.2_Missense_Mutation_p.R710H	NM_005211	NP_005202	P07333	CSF1R_HUMAN	colony stimulating factor 1 receptor precursor	710	Protein kinase.|Cytoplasmic (Potential).				cell proliferation|multicellular organismal development|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane|receptor complex	ATP binding|cytokine binding|macrophage colony-stimulating factor receptor activity|protein homodimerization activity			haematopoietic_and_lymphoid_tissue(38)|lung(6)|central_nervous_system(3)|liver(3)|breast(2)|endometrium(1)|ovary(1)	54			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)		Imatinib(DB00619)|Sunitinib(DB01268)	GGGCTACCTGCGGACATATTT	0.587													8	96					0	0	0.006214	0	0	
CSF1R	1436	broad.mit.edu	37	5	149441338	149441338	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:149441338C>T	uc003lrl.2	-	11	1896	c.1701G>A	c.(1699-1701)ACG>ACA	p.T567T	CSF1R_uc011dcd.1_Silent_p.T419T|CSF1R_uc010jhc.2_RNA|CSF1R_uc003lrm.2_Silent_p.T567T	NM_005211	NP_005202	P07333	CSF1R_HUMAN	colony stimulating factor 1 receptor precursor	567	Cytoplasmic (Potential).				cell proliferation|multicellular organismal development|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane|receptor complex	ATP binding|cytokine binding|macrophage colony-stimulating factor receptor activity|protein homodimerization activity			haematopoietic_and_lymphoid_tissue(38)|lung(6)|central_nervous_system(3)|liver(3)|breast(2)|endometrium(1)|ovary(1)	54			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)		Imatinib(DB00619)|Sunitinib(DB01268)	AAGGCAGCTGCGTGGGGTCGA	0.552													13	71					0	0	0.002450	0	0	
CSF1R	1436	broad.mit.edu	37	5	149447825	149447825	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:149447825C>T	uc003lrl.2	-	10	1774	c.1579G>A	c.(1579-1581)GCC>ACC	p.A527T	CSF1R_uc011dcd.1_Missense_Mutation_p.A379T|CSF1R_uc010jhc.2_RNA|CSF1R_uc003lrm.2_Missense_Mutation_p.A527T	NM_005211	NP_005202	P07333	CSF1R_HUMAN	colony stimulating factor 1 receptor precursor	527	Helical; (Potential).				cell proliferation|multicellular organismal development|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane|receptor complex	ATP binding|cytokine binding|macrophage colony-stimulating factor receptor activity|protein homodimerization activity			haematopoietic_and_lymphoid_tissue(38)|lung(6)|central_nervous_system(3)|liver(3)|breast(2)|endometrium(1)|ovary(1)	54			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)		Imatinib(DB00619)|Sunitinib(DB01268)	agcagcaAGGCCATGATGGAC	0.507													7	29					0	0	0.008291	0	0	
CSF1R	1436	broad.mit.edu	37	5	149459840	149459840	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:149459840C>T	uc003lrl.2	-	3	562	c.367G>A	c.(367-369)GCA>ACA	p.A123T	CSF1R_uc011dcd.1_5'UTR|CSF1R_uc010jhc.2_RNA|CSF1R_uc003lrm.2_Missense_Mutation_p.A123T|CSF1R_uc011dce.1_Missense_Mutation_p.A123T|CSF1R_uc011dcf.1_Missense_Mutation_p.A123T	NM_005211	NP_005202	P07333	CSF1R_HUMAN	colony stimulating factor 1 receptor precursor	123	Extracellular (Potential).|Ig-like C2-type 2.				cell proliferation|multicellular organismal development|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane|receptor complex	ATP binding|cytokine binding|macrophage colony-stimulating factor receptor activity|protein homodimerization activity			haematopoietic_and_lymphoid_tissue(38)|lung(6)|central_nervous_system(3)|liver(3)|breast(2)|endometrium(1)|ovary(1)	54			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)		Imatinib(DB00619)|Sunitinib(DB01268)	GGCAGTAGTGCGTCCTGGTCC	0.642													10	16					0	0	0.008291	0	0	
PDGFRB	5159	broad.mit.edu	37	5	149501454	149501454	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:149501454T>C	uc003lro.2	-	16	2802	c.2333A>G	c.(2332-2334)TAC>TGC	p.Y778C	PDGFRB_uc010jhd.2_Missense_Mutation_p.Y617C	NM_002609	NP_002600	P09619	PGFRB_HUMAN	platelet-derived growth factor receptor beta	778	Cytoplasmic (Potential).|Protein kinase.				aorta morphogenesis|cardiac myofibril assembly|hemopoiesis|metanephric glomerular capillary formation|metanephric glomerular mesangial cell proliferation involved in metanephros development|peptidyl-tyrosine phosphorylation|positive regulation of calcium ion import|positive regulation of chemotaxis|positive regulation of DNA biosynthetic process|positive regulation of ERK1 and ERK2 cascade|positive regulation of MAP kinase activity|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of mitosis|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|protein autophosphorylation|regulation of actin cytoskeleton organization|retina vasculature development in camera-type eye|smooth muscle cell chemotaxis	apical plasma membrane|cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet activating factor receptor activity|platelet-derived growth factor beta-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|vascular endothelial growth factor receptor activity			central_nervous_system(4)|lung(4)|breast(3)|stomach(2)|prostate(2)|large_intestine(1)|ovary(1)	17		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		Becaplermin(DB00102)|Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	AGAGGGAACGTAGTTATCGTA	0.468			T	ETV6|TRIP11|HIP1|RAB5EP|H4|NIN|HCMOGT-1|PDE4DIP	MPD|AML|CMML|CML								13	79					0	0	0.003163	0	0	
CAMK2A	815	broad.mit.edu	37	5	149631348	149631348	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:149631348G>A	uc003lru.2	-	9	873	c.658C>T	c.(658-660)CGC>TGC	p.R220C	CAMK2A_uc003lrt.2_Missense_Mutation_p.R220C|CAMK2A_uc010jhe.2_Missense_Mutation_p.R200C|CAMK2A_uc010jhf.1_Silent_p.T57T	NM_171825	NP_741960	Q9UQM7	KCC2A_HUMAN	calcium/calmodulin-dependent protein kinase II	220	Protein kinase.				interferon-gamma-mediated signaling pathway|positive regulation of NF-kappaB transcription factor activity|synaptic transmission	cell junction|cytosol|endocytic vesicle membrane|nucleoplasm|presynaptic membrane	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			large_intestine(1)	1		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TGGTACAGGCGGTGCTGGTCC	0.597													4	15					0	0	0.009096	0	0	
TCOF1	6949	broad.mit.edu	37	5	149775932	149775932	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:149775932C>T	uc003lry.2	+	24	3977	c.3869C>T	c.(3868-3870)GCG>GTG	p.A1290V	TCOF1_uc011dch.1_Missense_Mutation_p.A1253V|TCOF1_uc003lrz.2_Missense_Mutation_p.A1252V|TCOF1_uc003lrx.2_Missense_Mutation_p.A1214V|TCOF1_uc003lsa.2_Missense_Mutation_p.A1213V	NM_001135243	NP_001128715	Q13428	TCOF_HUMAN	Treacher Collins-Franceschetti syndrome 1	1290					skeletal system development	nucleolus	protein binding|transporter activity			ovary(2)|large_intestine(1)	3		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TCAACCCTGGCGCTGCAAAGC	0.612													13	29					0	0	0.003163	0	0	
NDST1	3340	broad.mit.edu	37	5	149907766	149907766	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:149907766G>A	uc003lsk.3	+	3	1416	c.914G>A	c.(913-915)CGC>CAC	p.R305H	NDST1_uc011dcj.1_Missense_Mutation_p.R305H|NDST1_uc003lsl.2_Missense_Mutation_p.R305H	NM_001543	NP_001534	P52848	NDST1_HUMAN	N-deacetylase/N-sulfotransferase (heparan	305	Heparan sulfate N-deacetylase 1.|Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process|inflammatory response	Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			breast(1)|skin(1)	2		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			ACGGGGAAGCGCCTCTCCCTG	0.587													4	22					0	0	0.009096	0	0	
ANXA6	309	broad.mit.edu	37	5	150489327	150489327	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:150489327C>T	uc003ltl.1	-	22	1823	c.1671G>A	c.(1669-1671)CCG>CCA	p.P557P	ANXA6_uc011dcp.1_Silent_p.P525P|ANXA6_uc003ltm.1_Silent_p.P551P|ANXA6_uc003ltn.1_Silent_p.P344P|ANXA6_uc003lto.1_Silent_p.P144P	NM_001155	NP_001146	P08133	ANXA6_HUMAN	annexin VI isoform 1	557	Annexin 7.					melanosome	calcium ion binding|calcium-dependent phospholipid binding|protein binding				0		Medulloblastoma(196;0.0912)|all_hematologic(541;0.208)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TCCGGAGGTGCGGATAGCTCC	0.562													8	15					0	0	0.004482	0	0	
ANXA6	309	broad.mit.edu	37	5	150509077	150509077	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:150509077C>T	uc003ltl.1	-	12	961	c.809G>A	c.(808-810)CGG>CAG	p.R270Q	ANXA6_uc011dcp.1_Missense_Mutation_p.R238Q|ANXA6_uc003ltm.1_Missense_Mutation_p.R270Q|ANXA6_uc003ltn.1_Intron|ANXA6_uc003lto.1_Intron	NM_001155	NP_001146	P08133	ANXA6_HUMAN	annexin VI isoform 1	270	Annexin 4.					melanosome	calcium ion binding|calcium-dependent phospholipid binding|protein binding				0		Medulloblastoma(196;0.0912)|all_hematologic(541;0.208)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GGTGTTGTCCCGAGTCCCCAG	0.527													9	7					0	0	0.006214	0	0	
FAT2	2196	broad.mit.edu	37	5	150885564	150885564	+	Silent	SNP	C	T	T	rs142209223	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:150885564C>T	uc003lue.3	-	23	12625	c.12612G>A	c.(12610-12612)CCG>CCA	p.P4204P	GM2A_uc011dcs.1_Intron|FAT2_uc003lud.3_Silent_p.P811P	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	4204	Cytoplasmic (Potential).				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GAGCCGAGGGCGGCAGAGGGC	0.622													20	45					0	0	0.003330	0	0	
FAT2	2196	broad.mit.edu	37	5	150897291	150897291	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:150897291G>A	uc003lue.3	-	19	11366	c.11353C>T	c.(11353-11355)CGG>TGG	p.R3785W	GM2A_uc011dcs.1_Intron|FAT2_uc003lud.3_Missense_Mutation_p.R478W	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	3785	Extracellular (Potential).|Laminin G-like.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GCCCTGTACCGCACATAGCTC	0.473													13	43					0	0	0.007413	0	0	
FAT2	2196	broad.mit.edu	37	5	150922506	150922506	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:150922506G>A	uc003lue.3	-	9	8195	c.8182C>T	c.(8182-8184)CGG>TGG	p.R2728W	GM2A_uc011dcs.1_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	2728	Cadherin 24.|Extracellular (Potential).				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GTAGTGCCCCGCACTAGACTG	0.502													15	55					0	0	0.002450	0	0	
SPARC	6678	broad.mit.edu	37	5	151043671	151043671	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:151043671G>A	uc003luh.2	-	8	884	c.860C>T	c.(859-861)GCC>GTC	p.A287V	GM2A_uc011dcs.1_Intron|SPARC_uc003lug.2_Missense_Mutation_p.A121V|SPARC_uc003lui.2_Missense_Mutation_p.A287V	NM_003118	NP_003109	P09486	SPRC_HUMAN	secreted protein, acidic, cysteine-rich	287	EF-hand.				ossification|platelet activation|platelet degranulation|signal transduction	basement membrane|extracellular space|platelet alpha granule lumen	calcium ion binding|collagen binding			central_nervous_system(1)	1		Medulloblastoma(196;0.109)|all_hematologic(541;0.122)	Kidney(363;0.000171)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)	OV - Ovarian serous cystadenocarcinoma(192;0.00118)	Becaplermin(DB00102)	GAAGCAGCCGGCCCACTCATC	0.582													9	67					0	0	0.002450	0	0	
HAND1	9421	broad.mit.edu	37	5	153857252	153857252	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:153857252C>T	uc003lvn.2	-	1	573	c.317G>A	c.(316-318)CGC>CAC	p.R106H		NM_004821	NP_004812	O96004	HAND1_HUMAN	basic helix-loop-helix transcription factor	106	Basic motif.				angiogenesis|cardiac left ventricle formation|cardiac right ventricle formation|cardiac septum morphogenesis|heart looping|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter|trophectodermal cell differentiation|ventricular cardiac muscle tissue morphogenesis	cytoplasm|nucleolus|nucleoplasm	bHLH transcription factor binding|DNA binding|protein homodimerization activity|transcription coactivator activity				0	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	Kidney(363;8.21e-05)|KIRC - Kidney renal clear cell carcinoma(527;0.000577)			GCTCTCAGTGCGTCTCCGCTC	0.667													6	21					0	0	0.003080	0	0	
KIF4B	285643	broad.mit.edu	37	5	154393675	154393675	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:154393675G>A	uc010jih.1	+	1	416	c.256G>A	c.(256-258)GCC>ACC	p.A86T		NM_001099293	NP_001092763	Q2VIQ3	KIF4B_HUMAN	kinesin family member 4B	86	Kinesin-motor.				axon guidance|blood coagulation|microtubule-based movement	cytosol|microtubule|nuclear matrix	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			AACGGTCCTGGCCTATGGGCA	0.453													10	100					0	0	0.006214	0	0	
PPP1R2P3	153743	broad.mit.edu	37	5	156277860	156277860	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:156277860C>T	uc003lwf.1	+	1	312	c.287C>T	c.(286-288)GCG>GTG	p.A96V		NR_002168				RecName: Full=Putative protein phosphatase inhibitor 2-like protein 3; AltName: Full=Protein phosphatase 1, regulatory subunit 2 pseudogene 3;												0						GAAGCCATGGCGCCAGACATC	0.483													5	21					0	0	0.000602	0	0	
SOX30	11063	broad.mit.edu	37	5	157053375	157053375	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:157053375T>C	uc003lxb.1	-	5	2577	c.2235A>G	c.(2233-2235)GAA>GAG	p.E745E	SOX30_uc003lxc.1_3'UTR|SOX30_uc011dds.1_Silent_p.E440E	NM_178424	NP_848511	O94993	SOX30_HUMAN	SRY (sex determining region Y)-box 30 isoform a	745					regulation of transcription from RNA polymerase II promoter|regulation of transcription, DNA-dependent|response to corticosteroid stimulus|transcription, DNA-dependent	nucleus|nucleus	sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity			ovary(1)|central_nervous_system(1)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.138)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CTTTTTCTTCTTCCTCCTCAT	0.383													5	76					0	0	0.000602	0	0	
THG1L	54974	broad.mit.edu	37	5	157159916	157159916	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:157159916C>T	uc003lxd.2	+	2	358	c.232C>T	c.(232-234)CGT>TGT	p.R78C	THG1L_uc011ddu.1_5'UTR	NM_017872	NP_060342	Q9NWX6	THG1_HUMAN	interphase cytoplasmic foci protein 45	78					protein homotetramerization|tRNA modification	mitochondrion	GTP binding|metal ion binding|tRNA guanylyltransferase activity				0	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CAATGACAGCCGTGCTCTCCA	0.468													28	94					0	0	0.005443	0	0	
ADRA1B	147	broad.mit.edu	37	5	159344141	159344141	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:159344141C>T	uc003lxt.1	+	1	402	c.229C>T	c.(229-231)CGG>TGG	p.R77W		NM_000679	NP_000670	P35368	ADA1B_HUMAN	alpha-1B-adrenergic receptor	77	Cytoplasmic (By similarity).				cell proliferation|cell-cell signaling|G-protein signaling, coupled to cAMP nucleotide second messenger|intracellular protein kinase cascade	integral to plasma membrane	alpha1-adrenergic receptor activity			lung(1)	1	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.138)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Alfuzosin(DB00346)|Bethanidine(DB00217)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Dextroamphetamine(DB01576)|Doxazosin(DB00590)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Guanfacine(DB01018)|Labetalol(DB00598)|Lisdexamfetamine(DB01255)|Methamphetamine(DB01577)|Methotrimeprazine(DB01403)|Methoxamine(DB00723)|Midodrine(DB00211)|Modafinil(DB00745)|Nefazodone(DB01149)|Norepinephrine(DB00368)|Olanzapine(DB00334)|Phendimetrazine(DB01579)|Phenylephrine(DB00388)|Prazosin(DB00457)|Promazine(DB00420)|Propericiazine(DB01608)|Propiomazine(DB00777)|Quetiapine(DB01224)|Risperidone(DB00734)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)|Trazodone(DB00656)	CCGGCACCTGCGGACGCCCAC	0.612													22	65					0	0	0.004656	0	0	
CCNJL	79616	broad.mit.edu	37	5	159680757	159680757	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:159680757G>A	uc003lyb.1	-	7	1188	c.936C>T	c.(934-936)GCC>GCT	p.A312A	CCNJL_uc011dee.1_Silent_p.A264A|CCNJL_uc003lyc.1_RNA	NM_024565	NP_078841	Q8IV13	CCNJL_HUMAN	cyclin J-like	312						nucleus					0	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CCATTGCCAAGGCCTGGCTCT	0.627													3	6					0	0	0.009096	0	0	
HMMR	3161	broad.mit.edu	37	5	162910329	162910329	+	Missense_Mutation	SNP	C	T	T	rs140371330	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:162910329C>T	uc003lzf.2	+	15	1920	c.1738C>T	c.(1738-1740)CGT>TGT	p.R580C	HMMR_uc003lzh.2_Missense_Mutation_p.R581C|HMMR_uc003lzg.2_Missense_Mutation_p.R565C|HMMR_uc011dem.1_Missense_Mutation_p.R494C|uc003lzi.2_Intron	NM_012484	NP_036616	O75330	HMMR_HUMAN	hyaluronan-mediated motility receptor isoform b	580						cell surface|cytoplasm	hyaluronic acid binding				0	Renal(175;0.000281)	Medulloblastoma(196;0.00853)|all_neural(177;0.0408)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0296)|OV - Ovarian serous cystadenocarcinoma(192;0.0423)|Epithelial(171;0.0848)		TAACAAGTGGCGTCTCCTCTA	0.299													16	102					0	0	0.004990	0	0	
Unknown	0	broad.mit.edu	37	5	164028161	164028161	+	RNA	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:164028161G>A	uc003lzn.2	+	3		c.339G>A								Homo sapiens, clone IMAGE:4479080, mRNA, partial cds.																		CGTTGTAGACGCCCACCCTGC	0.587													7	16					0	0	0.001984	0	0	
ODZ2	57451	broad.mit.edu	37	5	167645893	167645893	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:167645893G>C	uc010jjd.2	+	23	4970	c.4970G>C	c.(4969-4971)GGC>GCC	p.G1657A	ODZ2_uc003lzr.3_Missense_Mutation_p.G1427A|ODZ2_uc003lzt.3_Missense_Mutation_p.G1030A|ODZ2_uc010jje.2_Missense_Mutation_p.G921A	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)		ACCAATGGAGGCCTCAAAGTC	0.577													9	143					0	0	0.000978	0	0	
ODZ2	57451	broad.mit.edu	37	5	167673925	167673925	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:167673925C>T	uc010jjd.2	+	27	5954	c.5954C>T	c.(5953-5955)GCT>GTT	p.A1985V	ODZ2_uc003lzr.3_Missense_Mutation_p.A1755V|ODZ2_uc003lzt.3_Missense_Mutation_p.A1358V|ODZ2_uc010jje.2_Missense_Mutation_p.A1249V	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)		GAAAGCAATGCTTCGGTCATC	0.547													5	58					0	0	0.001168	0	0	
RARS	5917	broad.mit.edu	37	5	167944920	167944920	+	Missense_Mutation	SNP	C	T	T	rs147793623		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:167944920C>T	uc003lzx.2	+	14	1767	c.1726C>T	c.(1726-1728)CGG>TGG	p.R576W	RARS_uc011deo.1_Missense_Mutation_p.R370W	NM_002887	NP_002878	P54136	SYRC_HUMAN	arginyl-tRNA synthetase	576					arginyl-tRNA aminoacylation	cytosol|nucleus|soluble fraction	arginine-tRNA ligase activity|ATP binding|protein binding			ovary(2)|skin(1)	3	Renal(175;0.000159)|Lung NSC(126;0.0875)|all_lung(126;0.166)	Medulloblastoma(196;0.0208)|all_neural(177;0.0227)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0693)|Epithelial(171;0.131)|OV - Ovarian serous cystadenocarcinoma(192;0.156)		GAAACTAGGCCGGTGCATTTT	0.408													12	83					0	0	0.000978	0	0	
DOCK2	1794	broad.mit.edu	37	5	169230209	169230209	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:169230209C>T	uc003maf.2	+	26	2782	c.2702C>T	c.(2701-2703)GCG>GTG	p.A901V	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.A393V	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	901					actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TACCAGGATGCGGTGAGTCCT	0.468													16	52					0	0	0.004990	0	0	
DOCK2	1794	broad.mit.edu	37	5	169463553	169463553	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:169463553A>G	uc003maf.2	+	36	3739	c.3659A>G	c.(3658-3660)TAC>TGC	p.Y1220C	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.Y712C	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1220	DHR-2.|Interaction with CRKL.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GAGGAGATGTACATAAGGTAA	0.284													16	59					0	0	0.004007	0	0	
FOXI1	2299	broad.mit.edu	37	5	169535053	169535053	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:169535053G>A	uc003mai.3	+	2	620	c.575G>A	c.(574-576)GGC>GAC	p.G192D	FOXI1_uc003maj.3_Intron	NM_012188	NP_036320	Q12951	FOXI1_HUMAN	forkhead box I1 isoform a	192	Fork-head.				epidermal cell fate specification|otic placode formation|pattern specification process|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|transcription regulatory region DNA binding			breast(3)|central_nervous_system(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0267)|all_lung(126;0.04)	Medulloblastoma(196;0.0109)|all_neural(177;0.0298)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TTTGTATCAGGCAAAGGGAAT	0.423									Pendred_syndrome				18	35					0	0	0.008871	0	0	
SH3PXD2B	285590	broad.mit.edu	37	5	171777377	171777377	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:171777377G>A	uc003mbr.2	-	10	1173	c.1002C>T	c.(1000-1002)GAC>GAT	p.D334D		NM_001017995	NP_001017995	A1X283	SPD2B_HUMAN	SH3 and PX domains 2B	334					adipose tissue development|bone development|cell communication|cell differentiation|eye development|heart development|podosome assembly	cell junction|cell projection|cytoplasm|podosome	phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-5-phosphate binding|SH2 domain binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.011)|all_lung(126;0.0175)	Medulloblastoma(196;0.0207)|all_neural(177;0.0625)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			TCTGCTTGGCGTCACCGTCGG	0.493													4	15					0	0	0.004482	0	0	
CPEB4	80315	broad.mit.edu	37	5	173317732	173317732	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:173317732G>A	uc003mcs.3	+	1	2402	c.996G>A	c.(994-996)TCG>TCA	p.S332S	CPEB4_uc010jju.1_Silent_p.S332S|CPEB4_uc010jjv.2_Silent_p.S332S|CPEB4_uc011dfg.1_Silent_p.S332S|CPEB4_uc003mct.3_5'Flank|CPEB4_uc003mcu.3_5'Flank	NM_030627	NP_085130	Q17RY0	CPEB4_HUMAN	cytoplasmic polyadenylation element binding	332							nucleotide binding|RNA binding				0	Renal(175;0.000159)|Lung NSC(126;0.0128)|all_lung(126;0.0202)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			ACTCCATCTCGCCTTTGAAGA	0.537													13	54					0	0	0.001855	0	0	
CPLX2	10814	broad.mit.edu	37	5	175306958	175306958	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:175306958C>T	uc003mde.1	+	5	661	c.315C>T	c.(313-315)TGC>TGT	p.C105C	CPLX2_uc003mdf.1_Silent_p.C105C	NM_006650	NP_006641	Q6PUV4	CPLX2_HUMAN	complexin 2	105					mast cell degranulation|positive regulation of synaptic plasticity|vesicle docking involved in exocytosis	cytosol		p.C105C(1)		ovary(1)	1	all_cancers(89;0.004)|Renal(175;0.000269)|Lung NSC(126;0.00441)|all_lung(126;0.00747)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			CTGCGGGCTGCGGGGACGAGG	0.627													3	8					0	0	0.009096	0	0	
FAF2	23197	broad.mit.edu	37	5	175919216	175919216	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:175919216G>A	uc003mej.3	+	5	419	c.366G>A	c.(364-366)CGG>CGA	p.R122R		NM_014613	NP_055428	Q96CS3	FAF2_HUMAN	UBX domain containing 8	122					response to unfolded protein	endoplasmic reticulum|lipid particle	protein binding			ovary(1)	1						GTTTTATACGGCCTGACCCTC	0.478													23	69					0	0	0.005443	0	0	
CDHR2	54825	broad.mit.edu	37	5	176011688	176011688	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:176011688C>T	uc003mem.1	+	19	2472	c.2406C>T	c.(2404-2406)AAC>AAT	p.N802N	CDHR2_uc003men.1_Silent_p.N802N	NM_017675	NP_060145	Q9BYE9	CDHR2_HUMAN	protocadherin LKC precursor	802	Cadherin 7.|Extracellular (Potential).				homophilic cell adhesion|negative regulation of cell growth	apical plasma membrane|cell junction|integral to membrane	calcium ion binding|protein binding			ovary(2)	2						AAGACGTGAACGACAATCCCC	0.592													30	74					0	0	0.002096	0	0	
NSD1	64324	broad.mit.edu	37	5	176638555	176638555	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:176638555G>A	uc003mfr.3	+	5	3293	c.3155G>A	c.(3154-3156)CGC>CAC	p.R1052H	NSD1_uc003mft.3_Missense_Mutation_p.R783H|NSD1_uc003mfs.1_Missense_Mutation_p.R949H|NSD1_uc011dfx.1_Missense_Mutation_p.R700H	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	1052					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)		AAGACCGAGCGCAAAAGAAAA	0.478			T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			55	136					0	0	0.003610	0	0	
NSD1	64324	broad.mit.edu	37	5	176638998	176638998	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:176638998C>T	uc003mfr.3	+	5	3736	c.3598C>T	c.(3598-3600)CGG>TGG	p.R1200W	NSD1_uc003mft.3_Missense_Mutation_p.R931W|NSD1_uc003mfs.1_Missense_Mutation_p.R1097W|NSD1_uc011dfx.1_Missense_Mutation_p.R848W	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	1200					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)		GCAGGAGGGGCGGGATGAGTT	0.488			T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			12	71					0	0	0.002450	0	0	
NSD1	64324	broad.mit.edu	37	5	176665366	176665366	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:176665366G>A	uc003mfr.3	+	7	4188	c.4050G>A	c.(4048-4050)CCG>CCA	p.P1350P	NSD1_uc003mft.3_Silent_p.P1081P|NSD1_uc003mfs.1_Silent_p.P1247P|NSD1_uc011dfx.1_Silent_p.P998P	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	1350					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)		GGGAGGCTCCGTTTTTGGAGG	0.537			T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			5	99					0	0	0.001168	0	0	
DDX41	51428	broad.mit.edu	37	5	176941755	176941755	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:176941755G>A	uc003mho.2	-	9	903	c.882C>T	c.(880-882)TGC>TGT	p.C294C	DDX41_uc003mhm.2_Silent_p.C74C|DDX41_uc003mhn.2_Silent_p.C163C|DDX41_uc003mhp.2_Silent_p.C163C|DDX41_uc003mhq.1_Silent_p.C74C	NM_016222	NP_057306	Q9UJV9	DDX41_HUMAN	DEAD-box protein abstrakt	294	Helicase ATP-binding.				apoptosis|multicellular organismal development	catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding|zinc ion binding				0	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.191)			TGCAGAGGGCGCAGCGCAGGA	0.657													19	33					0	0	0.002299	0	0	
FAM193B	54540	broad.mit.edu	37	5	176965990	176965990	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:176965990G>A	uc003mhs.3	-	3	1619	c.30C>T	c.(28-30)GGC>GGT	p.G10G	FAM193B_uc003mht.2_5'Flank|FAM193B_uc003mhu.2_5'Flank|FAM193B_uc003mhv.2_5'UTR|FAM193B_uc003mhw.2_RNA	NM_019057	NP_061930	E9PET5	E9PET5_HUMAN	hypothetical protein LOC54540	123											0						GAGGCATCTCGCCTAGGAGAT	0.552													24	51					0	0	0.006320	0	0	
B4GALT7	11285	broad.mit.edu	37	5	177035954	177035954	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:177035954G>A	uc003mhy.2	+	5	807	c.767G>A	c.(766-768)CGC>CAC	p.R256H	B4GALT7_uc003mhz.2_Missense_Mutation_p.R142H	NM_007255	NP_009186	Q9UBV7	B4GT7_HUMAN	xylosylprotein beta 1,4-galactosyltransferase 7	256	Lumenal (Potential).				fibril organization|glycosaminoglycan biosynthetic process|negative regulation of fibroblast proliferation|protein modification process|proteoglycan metabolic process	Golgi cisterna membrane|integral to membrane	metal ion binding|xylosylprotein 4-beta-galactosyltransferase activity			pancreas(1)	1	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AAGACATTTCGCCACCTGCAT	0.607													6	64					0	0	0.001984	0	0	
CLK4	57396	broad.mit.edu	37	5	178032359	178032359	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:178032359C>T	uc003mjf.1	-	11	1267	c.1159G>A	c.(1159-1161)GCA>ACA	p.A387T	CLK4_uc003mjg.1_Missense_Mutation_p.A351T|CLK4_uc010jku.1_Missense_Mutation_p.A207T|CLK4_uc003mjh.1_Missense_Mutation_p.A207T|CLK4_uc010jkv.1_RNA|CLK4_uc011dgg.1_Intron|CLK4_uc011dgh.1_Missense_Mutation_p.A207T	NM_020666	NP_065717	Q9HAZ1	CLK4_HUMAN	CDC-like kinase 4	387	Protein kinase.					nucleus	ATP binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(1)	1	all_cancers(89;0.000969)|Renal(175;0.000159)|all_epithelial(37;0.000451)|Lung NSC(126;0.00545)|all_lung(126;0.00918)	all_cancers(40;0.0272)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.235)		TCCATCATTGCCAGGTGCTCT	0.323													4	49					0	0	0.009096	0	0	
RUFY1	80230	broad.mit.edu	37	5	178987036	178987036	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:178987036C>T	uc003mka.1	+	2	321	c.321C>T	c.(319-321)TGC>TGT	p.C107C	RUFY1_uc003mkb.1_5'UTR|RUFY1_uc003mkc.1_5'UTR	NM_025158	NP_079434	Q96T51	RUFY1_HUMAN	RUN and FYVE domain-containing 1 isoform a	107					endocytosis|protein transport	early endosome membrane	lipid binding|zinc ion binding			ovary(4)|breast(1)	5	all_cancers(89;0.00018)|all_epithelial(37;8.37e-05)|Renal(175;0.000159)|Lung NSC(126;0.00108)|all_lung(126;0.00195)	all_cancers(40;0.0322)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CTTCTAAGTGCCAGATGATGG	0.602										HNSCC(44;0.11)			9	28					0	0	0.006214	0	0	
SQSTM1	8878	broad.mit.edu	37	5	179250014	179250014	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:179250014T>C	uc003mkw.3	+	2	357	c.262T>C	c.(262-264)TCC>CCC	p.S88P	SQSTM1_uc011dgr.1_Missense_Mutation_p.S4P|SQSTM1_uc011dgs.1_Missense_Mutation_p.S4P|SQSTM1_uc003mkv.3_Missense_Mutation_p.S88P|SQSTM1_uc003mkx.2_Missense_Mutation_p.S4P	NM_003900	NP_003891	Q13501	SQSTM_HUMAN	sequestosome 1 isoform 1	88	OPR.|Interaction with PRKCZ and dimerization (By similarity).				anti-apoptosis|apoptosis|cell differentiation|endosome transport|induction of apoptosis by extracellular signals|intracellular signal transduction|macroautophagy|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|protein localization|regulation of I-kappaB kinase/NF-kappaB cascade|ubiquitin-dependent protein catabolic process	cytosol|late endosome|nucleoplasm	protein kinase C binding|receptor tyrosine kinase binding|SH2 domain binding|ubiquitin binding|zinc ion binding		SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(2)|ovary(1)	3	all_cancers(89;0.000205)|all_epithelial(37;7.15e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0395)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AATGGCCATGTCCTACGTGAA	0.512									Paget_Disease_of_Bone				11	39					0	0	0.001368	0	0	
MAPK9	5601	broad.mit.edu	37	5	179676011	179676011	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:179676011G>A	uc003mls.3	-	6	849	c.578C>T	c.(577-579)GCG>GTG	p.A193V	MAPK9_uc003mlt.3_Missense_Mutation_p.A193V|MAPK9_uc010jlc.2_Missense_Mutation_p.A193V|MAPK9_uc003mlv.3_Missense_Mutation_p.A193V|MAPK9_uc011dgx.1_Missense_Mutation_p.A193V	NM_002752	NP_002743	P45984	MK09_HUMAN	mitogen-activated protein kinase 9 isoform JNK2	193	Protein kinase.				innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of gene expression|positive regulation of macrophage derived foam cell differentiation|regulation of sequence-specific DNA binding transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|JUN kinase activity|protein binding|protein binding			central_nervous_system(2)|upper_aerodigestive_tract(1)|large_intestine(1)	4	all_cancers(89;6.54e-05)|all_epithelial(37;1.22e-05)|Renal(175;0.000269)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.137)	all_cancers(40;0.0236)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GACTTCGGGCGCCCGGTAGTA	0.552													30	215					0	0	0.002445	0	0	
GFPT2	9945	broad.mit.edu	37	5	179745956	179745956	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr5:179745956G>A	uc003mlw.1	-	10	893	c.795C>T	c.(793-795)AGC>AGT	p.S265S		NM_005110	NP_005101	O94808	GFPT2_HUMAN	glutamine-fructose-6-phosphate transaminase 2	265	Glutamine amidotransferase type-2.				dolichol-linked oligosaccharide biosynthetic process|energy reserve metabolic process|fructose 6-phosphate metabolic process|glutamine metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol	glutamine-fructose-6-phosphate transaminase (isomerizing) activity|sugar binding			ovary(1)|skin(1)	2	all_cancers(89;4.97e-05)|all_epithelial(37;1.22e-05)|Renal(175;0.000269)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.137)	Medulloblastoma(196;0.0392)|all_neural(177;0.0529)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)		L-Glutamine(DB00130)	CTATGATAGCGCTGGGGCAAG	0.602													5	44					0	0	0.003080	0	0	
EXOC2	55770	broad.mit.edu	37	6	549284	549284	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:549284C>T	uc003mtd.2	-	22	2263	c.2129G>A	c.(2128-2130)CGC>CAC	p.R710H	EXOC2_uc003mte.2_Missense_Mutation_p.R710H|EXOC2_uc011dho.1_Missense_Mutation_p.R305H	NM_018303	NP_060773	Q96KP1	EXOC2_HUMAN	Sec5 protein	710					exocytosis|protein transport					breast(4)|ovary(2)|pancreas(1)	7	Ovarian(93;0.0733)	Breast(5;0.0014)|all_lung(73;0.0697)|all_hematologic(90;0.0897)		OV - Ovarian serous cystadenocarcinoma(45;0.0507)|BRCA - Breast invasive adenocarcinoma(62;0.14)		TATCAAAAGGCGCTGTTCCTA	0.358													16	99					0	0	0.004007	0	0	
EXOC2	55770	broad.mit.edu	37	6	576783	576783	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:576783C>A	uc003mtd.2	-	12	1426	c.1292G>T	c.(1291-1293)AGC>ATC	p.S431I	EXOC2_uc003mte.2_Missense_Mutation_p.S431I|EXOC2_uc011dho.1_Missense_Mutation_p.S26I	NM_018303	NP_060773	Q96KP1	EXOC2_HUMAN	Sec5 protein	431					exocytosis|protein transport					breast(4)|ovary(2)|pancreas(1)	7	Ovarian(93;0.0733)	Breast(5;0.0014)|all_lung(73;0.0697)|all_hematologic(90;0.0897)		OV - Ovarian serous cystadenocarcinoma(45;0.0507)|BRCA - Breast invasive adenocarcinoma(62;0.14)		CTGAAAGCTGCTGCCCCTCTT	0.493													13	41					9.31168e-06	9.82941e-06	0.001855	1	0	
WRNIP1	56897	broad.mit.edu	37	6	2785298	2785298	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:2785298T>C	uc003mtz.2	+	7	1971	c.1780T>C	c.(1780-1782)TAC>CAC	p.Y594H	WRNIP1_uc003mua.2_Missense_Mutation_p.Y569H	NM_020135	NP_064520	Q96S55	WRIP1_HUMAN	Werner helicase interacting protein isoform 1	594					DNA replication|DNA synthesis involved in DNA repair|regulation of DNA-dependent DNA replication initiation	mitochondrion|nucleus|perinuclear region of cytoplasm	ATP binding|ATPase activity|DNA binding|metal ion binding|protein binding			ovary(1)|pancreas(1)	2	Ovarian(93;0.0412)	all_hematologic(90;0.0895)				CATTGAGGTGTACAGCGCCTA	0.567													11	50					0	0	0.008291	0	0	
SERPINB9	5272	broad.mit.edu	37	6	2900805	2900805	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:2900805C>T	uc003mug.2	-	2	162	c.41G>A	c.(40-42)CGC>CAC	p.R14H	uc003mue.2_RNA|SERPINB9_uc003muh.2_Missense_Mutation_p.R14H	NM_004155	NP_004146	P50453	SPB9_HUMAN	serpin peptidase inhibitor, clade B, member 9	14					anti-apoptosis|cellular response to estrogen stimulus|immune response|mast cell mediated immunity|regulation of proteolysis	cytosol|extracellular space|nucleus	caspase inhibitor activity|protease binding|serine-type endopeptidase inhibitor activity				0	Ovarian(93;0.0412)	all_hematologic(90;0.108)				CTTTAAAAGGCGTATGGCAAA	0.468													10	272					0	0	0.006214	0	0	
RIPK1	8737	broad.mit.edu	37	6	3083441	3083441	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:3083441G>A	uc010jni.2	+	5	814	c.582G>A	c.(580-582)GCG>GCA	p.A194A	RIPK1_uc003muv.3_Silent_p.A31A|RIPK1_uc003muw.3_Silent_p.A129A|RIPK1_uc011dhs.1_Silent_p.A148A|RIPK1_uc003mux.2_Silent_p.A194A	NM_003804	NP_003795	Q13546	RIPK1_HUMAN	receptor (TNFRSF)-interacting serine-threonine	194	Protein kinase.				activation of caspase activity|activation of JUN kinase activity|activation of pro-apoptotic gene products|induction of apoptosis by extracellular signals|induction of necroptosis by extracellular signals|innate immune response|MyD88-independent toll-like receptor signaling pathway|positive regulation of anti-apoptosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-8 production|positive regulation of NF-kappaB transcription factor activity|positive regulation of reactive oxygen species metabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|protein autophosphorylation|regulation of ATP:ADP antiporter activity|Toll signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|death-inducing signaling complex|endosome membrane|mitochondrion|receptor complex	ATP binding|death domain binding|death receptor binding|protein serine/threonine kinase activity			large_intestine(3)|lung(1)|skin(1)	5	Ovarian(93;0.0386)	all_hematologic(90;0.0895)				ACTACATGGCGCCCGAGCACC	0.488													7	96					0	0	0.003080	0	0	
FAM50B	26240	broad.mit.edu	37	6	3850869	3850869	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:3850869G>A	uc003mvu.2	+	2	936	c.824G>A	c.(823-825)CGC>CAC	p.R275H		NM_012135	NP_036267	Q9Y247	FA50B_HUMAN	family with sequence similarity 50, member B	275						nucleus				pancreas(1)	1	Ovarian(93;0.0925)	all_hematologic(90;0.108)				GATGACGTGCGCCTGCTCAGC	0.627													6	38					0	0	0.004482	0	0	
CDYL	9425	broad.mit.edu	37	6	4935874	4935874	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:4935874C>T	uc003mwi.2	+	5	1110	c.979C>T	c.(979-981)CGA>TGA	p.R327*	CDYL_uc003mwj.2_Nonsense_Mutation_p.R273*|CDYL_uc003mwk.2_Nonsense_Mutation_p.R38*|CDYL_uc011dhx.1_Nonsense_Mutation_p.R141*|CDYL_uc011dhy.1_Nonsense_Mutation_p.R141*	NM_001143971	NP_001137443	Q9Y232	CDYL1_HUMAN	chromodomain protein, Y chromosome-like isoform	327					regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	histone acetyltransferase activity				0	Ovarian(93;0.11)	all_hematologic(90;0.0901)|Lung NSC(90;0.244)		OV - Ovarian serous cystadenocarcinoma(45;0.182)		TTTTGACAAGCGATTGCGTTT	0.453													7	167					0	0	0.001984	0	0	
FARS2	10667	broad.mit.edu	37	6	5368994	5368994	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:5368994G>A	uc010jnv.1	+	2	527	c.191G>A	c.(190-192)AGC>AAC	p.S64N	FARS2_uc003mwr.2_Missense_Mutation_p.S64N|FARS2_uc003mws.1_Missense_Mutation_p.S64N	NM_006567	NP_006558	O95363	SYFM_HUMAN	phenylalanyl-tRNA synthetase 2 precursor	64					phenylalanyl-tRNA aminoacylation|tRNA processing	mitochondrial matrix|soluble fraction	ATP binding|magnesium ion binding|phenylalanine-tRNA ligase activity|tRNA binding				0	Ovarian(93;0.11)	all_hematologic(90;0.0104)			L-Phenylalanine(DB00120)	GACGACCACAGCAACCTCACC	0.607													4	46					0	0	0.000602	0	0	
NRN1	51299	broad.mit.edu	37	6	6002648	6002648	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:6002648G>A	uc003mwu.2	-	2	789	c.138C>T	c.(136-138)GGC>GGT	p.G46G	NRN1_uc003mwt.2_Silent_p.G72G	NM_016588	NP_057672	Q9NPD7	NRN1_HUMAN	neuritin precursor	46						anchored to membrane|plasma membrane					0	Ovarian(93;0.0816)	all_hematologic(90;0.151)		OV - Ovarian serous cystadenocarcinoma(45;0.00415)		CCATGCTGTCGCCCAGCTTGA	0.607													11	66					0	0	0.001368	0	0	
RREB1	6239	broad.mit.edu	37	6	7229286	7229286	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:7229286C>T	uc003mxc.2	+	10	1344	c.954C>T	c.(952-954)TGC>TGT	p.C318C	RREB1_uc003mxb.2_Silent_p.C318C|RREB1_uc010jnx.2_Silent_p.C318C	NM_001003698	NP_001003698	Q92766	RREB1_HUMAN	ras responsive element binding protein 1 isoform	318	C2H2-type 6.				multicellular organismal development|positive regulation of transcription, DNA-dependent|Ras protein signal transduction|transcription from RNA polymerase II promoter	cytoplasm|nuclear speck	DNA binding|zinc ion binding			ovary(4)|large_intestine(2)|pancreas(2)|skin(2)|breast(1)	11	Ovarian(93;0.0398)	all_hematologic(90;0.0384)|Prostate(151;0.191)				GTTTTGTCTGCGACACCTGTG	0.567													5	32					0	0	0.001168	0	0	
RREB1	6239	broad.mit.edu	37	6	7229303	7229303	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:7229303C>T	uc003mxc.2	+	10	1361	c.971C>T	c.(970-972)GCG>GTG	p.A324V	RREB1_uc003mxb.2_Missense_Mutation_p.A324V|RREB1_uc010jnx.2_Missense_Mutation_p.A324V	NM_001003698	NP_001003698	Q92766	RREB1_HUMAN	ras responsive element binding protein 1 isoform	324	C2H2-type 6.				multicellular organismal development|positive regulation of transcription, DNA-dependent|Ras protein signal transduction|transcription from RNA polymerase II promoter	cytoplasm|nuclear speck	DNA binding|zinc ion binding			ovary(4)|large_intestine(2)|pancreas(2)|skin(2)|breast(1)	11	Ovarian(93;0.0398)	all_hematologic(90;0.0384)|Prostate(151;0.191)				TGTGACAAGGCGTTCCCCATG	0.592													4	27					0	0	0.009096	0	0	
RREB1	6239	broad.mit.edu	37	6	7247285	7247285	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:7247285C>T	uc003mxc.2	+	11	4827	c.4437C>T	c.(4435-4437)AGC>AGT	p.S1479S	RREB1_uc003mxb.2_Silent_p.S1534S|RREB1_uc010jnx.2_Intron	NM_001003698	NP_001003698	Q92766	RREB1_HUMAN	ras responsive element binding protein 1 isoform	1479					multicellular organismal development|positive regulation of transcription, DNA-dependent|Ras protein signal transduction|transcription from RNA polymerase II promoter	cytoplasm|nuclear speck	DNA binding|zinc ion binding			ovary(4)|large_intestine(2)|pancreas(2)|skin(2)|breast(1)	11	Ovarian(93;0.0398)	all_hematologic(90;0.0384)|Prostate(151;0.191)				ACGGGGAGAGCGCGGCCGAGA	0.662													6	25					0	0	0.001984	0	0	
DSP	1832	broad.mit.edu	37	6	7583315	7583315	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:7583315T>C	uc003mxp.1	+	24	6099	c.5820T>C	c.(5818-5820)GAT>GAC	p.D1940D	DSP_uc003mxq.1_Silent_p.D1341D	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	1940	Central fibrous rod domain.|Potential.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		GGGAGATTGATAAACTCAGAC	0.517													22	82					0	0	0.002299	0	0	
DSP	1832	broad.mit.edu	37	6	7584793	7584793	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:7584793G>A	uc003mxp.1	+	24	7577	c.7298G>A	c.(7297-7299)TGC>TAC	p.C2433Y	DSP_uc003mxq.1_Missense_Mutation_p.C1834Y	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	2433	Plectin 11.|Globular 2.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		AAAGAAAGATGCATTAAGGAT	0.413													18	142					0	0	0.007413	0	0	
SNRNP48	154007	broad.mit.edu	37	6	7606353	7606353	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:7606353G>T	uc003mxr.2	+	8	955	c.896G>T	c.(895-897)AGG>ATG	p.R299M	SNRNP48_uc003mxs.2_RNA|SNRNP48_uc003mxt.1_Missense_Mutation_p.R51M	NM_152551	NP_689764	Q6IEG0	SNR48_HUMAN	U11/U12 snRNP 48K	299	Arg-rich.				mRNA processing	cytoplasm|U12-type spliceosomal complex	metal ion binding				0						AGAAGGGATAGGAGTAGAAGC	0.428													15	83					0.00400662	0.00415876	0.004007	1	0	
PIP5K1P1	206426	broad.mit.edu	37	6	7987733	7987733	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:7987733G>A	uc003mxx.3	+	1	1399	c.964G>A	c.(964-966)GCA>ACA	p.A322T	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						TATAGATCATGCACAACGAGA	0.478													5	35					0	0	0.001168	0	0	
SLC35B3	51000	broad.mit.edu	37	6	8428259	8428259	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:8428259G>A	uc010joe.2	-	4	496	c.330C>T	c.(328-330)TCC>TCT	p.S110S	SLC35B3_uc003mya.2_Silent_p.S78S|SLC35B3_uc003myc.2_RNA|SLC35B3_uc003myb.2_Silent_p.S110S|SLC35B3_uc011did.1_Silent_p.S110S|SLC35B3_uc003myd.2_RNA	NM_001142541	NP_001136013	Q9H1N7	S35B3_HUMAN	solute carrier family 35, member B3	110					transmembrane transport	Golgi membrane|integral to membrane					0	Ovarian(93;0.0569)					ACCAGCCACAGGACTTAAAAC	0.378													27	143					0	0	0.006230	0	0	
Unknown	0	broad.mit.edu	37	6	9933039	9933039	+	RNA	SNP	G	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:9933039G>C	uc003myg.1	-	2		c.208C>G			uc010jog.1_Missense_Mutation_p.Q49E|uc003myh.1_Missense_Mutation_p.Q74E|uc003myj.1_Missense_Mutation_p.Q74E|uc003myk.1_RNA|uc003myn.2_Missense_Mutation_p.Q74E|uc010joi.1_Missense_Mutation_p.Q142E|uc010joh.1_RNA|uc011dif.1_Missense_Mutation_p.Q74E|uc011dig.1_Missense_Mutation_p.Q74E					Homo sapiens clone 958LR MRDS1 protein (MRDS1) mRNA, complete cds.																		CTGAATTTTTGTTGGTGAGCT	0.473													34	104					0	0	0.004878	0	0	
MAK	4117	broad.mit.edu	37	6	10809075	10809075	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:10809075C>T	uc003mzl.2	-	5	688	c.459G>A	c.(457-459)CAG>CAA	p.Q153Q	SYCP2L_uc011dim.1_Intron|TMEM14B_uc010jos.1_Intron|MAK_uc010jot.2_RNA|MAK_uc010jou.2_RNA|MAK_uc003mzm.2_Silent_p.Q153Q|MAK_uc010jov.1_RNA	NM_005906	NP_005897	P20794	MAK_HUMAN	male germ cell-associated kinase	153	Protein kinase.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding|cyclin-dependent protein kinase activity			breast(2)|skin(1)	3	Breast(50;0.107)|Ovarian(93;0.107)	all_hematologic(90;0.117)				TGTATGGTGGCTGTGACCTTA	0.423													27	134					0	0	0.007291	0	0	
GCM2	9247	broad.mit.edu	37	6	10875058	10875058	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:10875058G>A	uc003mzn.3	-	5	763	c.691C>T	c.(691-693)CCT>TCT	p.P231S	SYCP2L_uc011dim.1_Intron	NM_004752	NP_004743	O75603	GCM2_HUMAN	glial cells missing homolog 2	231					cellular calcium ion homeostasis|cellular phosphate ion homeostasis|parathyroid gland development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|sequence-specific DNA binding			ovary(2)|central_nervous_system(1)	3	Breast(50;0.0838)|Ovarian(93;0.107)	all_hematologic(90;0.135)				GAAGGGCAAGGCTGCCCTGGA	0.458													7	93					0	0	0.001984	0	0	
SYCP2L	221711	broad.mit.edu	37	6	10924769	10924769	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:10924769G>A	uc003mzo.2	+	15	1409	c.1113G>A	c.(1111-1113)AAG>AAA	p.K371K	SYCP2L_uc011din.1_Silent_p.K212K|SYCP2L_uc010jow.2_5'UTR	NM_001040274	NP_001035364	Q5T4T6	SYC2L_HUMAN	synaptonemal complex protein 2-like	371						nucleus				ovary(1)|skin(1)	2	Breast(50;0.0838)|Ovarian(93;0.107)	all_hematologic(90;0.135)	Epithelial(50;0.239)			ACCTGAAGAAGCCCATGATTA	0.249													9	54					0	0	0.000978	0	0	
SYCP2L	221711	broad.mit.edu	37	6	10924823	10924823	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:10924823G>A	uc003mzo.2	+	15	1463	c.1167G>A	c.(1165-1167)TTG>TTA	p.L389L	SYCP2L_uc011din.1_Silent_p.L230L|SYCP2L_uc010jow.2_Silent_p.L9L	NM_001040274	NP_001035364	Q5T4T6	SYC2L_HUMAN	synaptonemal complex protein 2-like	389						nucleus				ovary(1)|skin(1)	2	Breast(50;0.0838)|Ovarian(93;0.107)	all_hematologic(90;0.135)	Epithelial(50;0.239)			ATTTTGATTTGCAGTTCAACA	0.214													8	38					0	0	0.008291	0	0	
NEDD9	4739	broad.mit.edu	37	6	11190445	11190445	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:11190445C>T	uc003mzv.2	-	5	1824	c.1657G>A	c.(1657-1659)GCA>ACA	p.A553T	NEDD9_uc010joz.2_Missense_Mutation_p.A553T|NEDD9_uc003mzw.3_Missense_Mutation_p.A407T	NM_006403	NP_006394	Q14511	CASL_HUMAN	neural precursor cell expressed, developmentally	553					actin filament bundle assembly|cell adhesion|cell division|integrin-mediated signaling pathway|mitosis|regulation of growth	cell cortex|focal adhesion|Golgi apparatus|lamellipodium|nucleus	protein binding				0	Breast(50;0.0768)|Ovarian(93;0.152)	all_hematologic(90;0.135)	Epithelial(50;0.0647)|all cancers(50;0.179)			AGGGCCTCTGCGTTGGTGTTG	0.592													6	99					0	0	0.001984	0	0	
EDN1	1906	broad.mit.edu	37	6	12296243	12296243	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:12296243G>T	uc003nae.3	+	5	916	c.582G>T	c.(580-582)AAG>AAT	p.K194N	EDN1_uc003nad.2_3'UTR|EDN1_uc003naf.3_Missense_Mutation_p.K193N	NM_001955	NP_001946	P05305	EDN1_HUMAN	endothelin 1 precursor	194					artery smooth muscle contraction|calcium-mediated signaling|leukocyte activation|negative regulation of blood coagulation|negative regulation of cellular protein metabolic process|negative regulation of nitric-oxide synthase biosynthetic process|negative regulation of transcription from RNA polymerase II promoter|nitric oxide transport|peptide hormone secretion|phosphatidylinositol 3-kinase cascade|positive regulation of cardiac muscle hypertrophy|positive regulation of cell size|positive regulation of endothelial cell migration|positive regulation of heart rate|positive regulation of hormone secretion|positive regulation of JUN kinase activity|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of prostaglandin-endoperoxide synthase activity|positive regulation of sarcomere organization|positive regulation of smooth muscle cell proliferation|prostaglandin biosynthetic process|protein kinase C deactivation|regulation of systemic arterial blood pressure by endothelin|regulation of vasoconstriction|vein smooth muscle contraction	cytoplasm|extracellular space	cytokine activity|endothelin A receptor binding|endothelin B receptor binding|hormone activity			skin(1)	1	all_cancers(95;0.241)|Breast(50;0.0266)|Ovarian(93;0.12)	all_hematologic(90;0.117)				ATGATCCCAAGCTGAAAGGCA	0.458													28	150					6.05902e-23	6.64722e-23	0.003755	1	0	
RANBP9	10048	broad.mit.edu	37	6	13638133	13638133	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:13638133C>T	uc003nbb.2	-	10	1639	c.1580G>A	c.(1579-1581)TGC>TAC	p.C527Y	RANBP9_uc003nba.2_Missense_Mutation_p.C186Y	NM_005493	NP_005484	Q96S59	RANB9_HUMAN	RAN binding protein 9	527					axon guidance|microtubule nucleation|protein complex assembly	cytosol|microtubule associated complex|nucleus	Ran GTPase binding			lung(1)|skin(1)	2	Breast(50;0.00669)|Ovarian(93;0.0634)	all_hematologic(90;0.117)	Epithelial(50;0.223)			ATTACTATGGCAATATGATTG	0.313													14	79					0	0	0.002450	0	0	
DTNBP1	84062	broad.mit.edu	37	6	15627674	15627674	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:15627674C>T	uc003nbm.2	-	5	426	c.255G>A	c.(253-255)GCG>GCA	p.A85A	DTNBP1_uc003nbl.2_Silent_p.A4A|DTNBP1_uc003nbn.2_RNA|DTNBP1_uc003nbo.2_RNA|DTNBP1_uc003nbp.2_Silent_p.A85A|DTNBP1_uc010jph.2_Silent_p.A72A	NM_032122	NP_115498	Q96EV8	DTBP1_HUMAN	dystrobrevin binding protein 1 isoform a	85					actin cytoskeleton reorganization|cellular membrane organization|neuron projection morphogenesis|post-Golgi vesicle-mediated transport|regulation of dopamine receptor signaling pathway	axon part|BLOC-1 complex|cell junction|dendritic spine|endoplasmic reticulum membrane|endosome membrane|growth cone|melanosome membrane|nucleus|postsynaptic density|postsynaptic membrane|sarcolemma|synaptic vesicle membrane|synaptosome	identical protein binding				0	Breast(50;0.0289)|Ovarian(93;0.103)	all_hematologic(90;0.0895)	Epithelial(50;0.211)			TCTCCCAGTGCGCAGAAAGCA	0.493									Hermansky-Pudlak_syndrome				5	36					0	0	0.003080	0	0	
MYLIP	29116	broad.mit.edu	37	6	16143955	16143955	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:16143955G>A	uc003nbq.2	+	5	925	c.688G>A	c.(688-690)GCC>ACC	p.A230T	MYLIP_uc003nbr.2_Missense_Mutation_p.A49T	NM_013262	NP_037394	Q8WY64	MYLIP_HUMAN	myosin regulatory light chain interacting	230	FERM.				cellular component movement|nervous system development	cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|ubiquitin-protein ligase activity|zinc ion binding			pancreas(1)	1	Breast(50;0.0799)|Ovarian(93;0.103)	all_hematologic(90;0.0895)	Epithelial(50;0.241)			GGTGCAGATGGCCACCCAGTC	0.483													6	93					0	0	0.001984	0	0	
CAP2	10486	broad.mit.edu	37	6	17421836	17421836	+	Missense_Mutation	SNP	G	A	A	rs141863829		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:17421836G>A	uc003ncb.2	+	2	293	c.50G>A	c.(49-51)CGC>CAC	p.R17H	CAP2_uc010jpk.1_RNA|CAP2_uc011dja.1_Missense_Mutation_p.R17H|CAP2_uc011djb.1_Missense_Mutation_p.R17H|CAP2_uc011djc.1_Missense_Mutation_p.R17H|CAP2_uc011djd.1_Missense_Mutation_p.R17H	NM_006366	NP_006357	P40123	CAP2_HUMAN	adenylyl cyclase-associated protein 2	17					activation of adenylate cyclase activity|axon guidance|cytoskeleton organization|establishment or maintenance of cell polarity|signal transduction	plasma membrane	actin binding			ovary(1)	1	Breast(50;0.0333)|Ovarian(93;0.0386)	all_hematologic(90;0.0466)	all cancers(50;0.194)|Epithelial(50;0.227)			GCTGTCAGCCGCCTGGAGTCG	0.567													13	79					0	0	0.001368	0	0	
CAP2	10486	broad.mit.edu	37	6	17543142	17543142	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:17543142C>T	uc003ncb.2	+	10	1320	c.1077C>T	c.(1075-1077)TGC>TGT	p.C359C	CAP2_uc010jpk.1_RNA|CAP2_uc011dja.1_Silent_p.C333C|CAP2_uc011djb.1_Silent_p.C295C|CAP2_uc011djc.1_Silent_p.C247C|CAP2_uc011djd.1_Silent_p.C99C	NM_006366	NP_006357	P40123	CAP2_HUMAN	adenylyl cyclase-associated protein 2	359	C-CAP/cofactor C-like.				activation of adenylate cyclase activity|axon guidance|cytoskeleton organization|establishment or maintenance of cell polarity|signal transduction	plasma membrane	actin binding			ovary(1)	1	Breast(50;0.0333)|Ovarian(93;0.0386)	all_hematologic(90;0.0466)	all cancers(50;0.194)|Epithelial(50;0.227)			TTTTCAAATGCGAAAAATCAA	0.333													8	136					0	0	0.006214	0	0	
NUP153	9972	broad.mit.edu	37	6	17637996	17637996	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:17637996C>T	uc003ncd.1	-	16	2052	c.1852G>A	c.(1852-1854)GCA>ACA	p.A618T	NUP153_uc011dje.1_Missense_Mutation_p.A649T|NUP153_uc010jpl.1_Missense_Mutation_p.A576T	NM_005124	NP_005115	P49790	NU153_HUMAN	nucleoporin 153kDa	618					carbohydrate metabolic process|glucose transport|interspecies interaction between organisms|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleolus|nucleoplasm	DNA binding|protein binding|transporter activity|zinc ion binding			lung(4)|ovary(2)|breast(2)|skin(1)	9	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.125)	all cancers(50;0.0981)|Epithelial(50;0.112)			TTCGGCGATGCGAAACCTACA	0.403													23	61					0	0	0.002299	0	0	
KDM1B	221656	broad.mit.edu	37	6	18200736	18200736	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:18200736G>A	uc003nco.1	+	6	754	c.679G>A	c.(679-681)GTC>ATC	p.V227I	KDM1B_uc003ncn.1_Missense_Mutation_p.V298I	NM_153042	NP_694587	Q8NB78	KDM1B_HUMAN	amine oxidase (flavin containing) domain 1	430	FAD (Potential).				multicellular organismal development|regulation of DNA methylation|regulation of gene expression by genetic imprinting|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-monomethyl-K4 specific)|oxidoreductase activity|zinc ion binding			skin(1)	1						TTTTAAAGGCGTCACAGTGGG	0.428													13	86					0	0	0.003163	0	0	
MBOAT1	154141	broad.mit.edu	37	6	20118754	20118754	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:20118754C>T	uc003ncx.1	-	9	1130	c.925G>A	c.(925-927)GCA>ACA	p.A309T	MBOAT1_uc011dji.1_Missense_Mutation_p.A160T	NM_001080480	NP_001073949	Q6ZNC8	MBOA1_HUMAN	membrane bound O-acyltransferase domain	309	Helical; (Potential).				phospholipid biosynthetic process	integral to membrane	acyltransferase activity				0	all_cancers(95;0.244)|Breast(50;0.0379)|Ovarian(93;0.0473)|all_epithelial(95;0.109)		OV - Ovarian serous cystadenocarcinoma(7;0.00392)|all cancers(50;0.0117)|Epithelial(50;0.0454)			AAGCCAGCTGCGTTATTCACT	0.393													17	53					0	0	0.010504	0	0	
E2F3	1871	broad.mit.edu	37	6	20481611	20481611	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:20481611G>T	uc003nda.2	+	3	1007	c.680G>T	c.(679-681)GGC>GTC	p.G227V	E2F3_uc003ncz.2_Missense_Mutation_p.G221V	NM_001949	NP_001940	O00716	E2F3_HUMAN	E2F transcription factor 3	227	Potential.|DEF box.				G1 phase of mitotic cell cycle|G2 phase of mitotic cell cycle|transcription initiation from RNA polymerase II promoter	transcription factor complex	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(1)	1	all_cancers(95;0.154)|all_epithelial(95;0.0585)|Breast(50;0.146)|Ovarian(93;0.148)		OV - Ovarian serous cystadenocarcinoma(7;0.0068)|all cancers(50;0.0148)|Epithelial(50;0.0562)			GTTCTGGAAGGCATCCACCTC	0.483													65	239					3.07281e-33	3.3768e-33	0.003610	1	0	
CDKAL1	54901	broad.mit.edu	37	6	20546663	20546663	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:20546663C>T	uc003ndc.1	+	3	256	c.82C>T	c.(82-84)CAT>TAT	p.H28Y	CDKAL1_uc003ndd.1_Missense_Mutation_p.H28Y|CDKAL1_uc003nde.1_5'UTR|CDKAL1_uc010jpo.1_Missense_Mutation_p.H28Y|CDKAL1_uc003ndb.1_Missense_Mutation_p.H28Y	NM_017774	NP_060244	Q5VV42	CDKAL_HUMAN	CDK5 regulatory subunit associated protein	28					RNA modification	integral to membrane	4 iron, 4 sulfur cluster binding|metal ion binding|transferase activity			ovary(2)	2	all_epithelial(95;0.0708)|Breast(50;0.131)|Ovarian(93;0.227)		OV - Ovarian serous cystadenocarcinoma(7;0.0241)|all cancers(50;0.123)|Epithelial(50;0.248)			ACAAGATAGGCATTTTGTAAG	0.408													13	104					0	0	0.001855	0	0	
PRL	5617	broad.mit.edu	37	6	22294697	22294697	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:22294697G>A	uc003ndp.2	-	2	664	c.145C>T	c.(145-147)CGC>TGC	p.R49C	PRL_uc003ndo.2_Missense_Mutation_p.R50C|PRL_uc003ndq.2_Missense_Mutation_p.R49C|PRL_uc003ndr.1_RNA	NM_000948	NP_000939	P01236	PRL_HUMAN	prolactin precursor	49					cell proliferation|cell surface receptor linked signaling pathway|female pregnancy|lactation|positive regulation of JAK-STAT cascade|regulation of multicellular organism growth	cytosol|extracellular region	hormone activity|prolactin receptor binding				0	Ovarian(93;0.163)					ACGACGGCGCGGTCAAACAGG	0.597													4	46					0	0	0.009096	0	0	
KIAA0319	9856	broad.mit.edu	37	6	24588855	24588855	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:24588855C>T	uc011djo.1	-	4	1197	c.960G>A	c.(958-960)GAG>GAA	p.E320E	KIAA0319_uc011djp.1_Silent_p.E275E|KIAA0319_uc003neh.1_Silent_p.E320E|KIAA0319_uc011djq.1_Silent_p.E311E|KIAA0319_uc011djr.1_Silent_p.E320E	NM_014809	NP_055624	Q5VV43	K0319_HUMAN	KIAA0319 precursor	320	Extracellular (Potential).				negative regulation of dendrite development|neuron migration	early endosome membrane|integral to membrane|plasma membrane	protein binding			ovary(1)|skin(1)	2						ATATGGGTAGCTCAGATGGGG	0.507													4	83					0	0	0.001984	0	0	
C6orf62	81688	broad.mit.edu	37	6	24714622	24714622	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:24714622C>T	uc003nel.2	-	3	860	c.353G>A	c.(352-354)CGG>CAG	p.R118Q		NM_030939	NP_112201	Q9GZU0	CF062_HUMAN	hypothetical protein LOC81688	118						intracellular					0						AATATCATTCCGAGGCCAAAG	0.343													26	80					0	0	0.003330	0	0	
LRRC16A	55604	broad.mit.edu	37	6	25594745	25594745	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:25594745A>G	uc011djw.1	+	32	3485	c.3109A>G	c.(3109-3111)ATG>GTG	p.M1037V	LRRC16A_uc010jpx.2_Missense_Mutation_p.M1037V|LRRC16A_uc010jpy.2_Missense_Mutation_p.M1037V	NM_017640	NP_060110	Q5VZK9	LR16A_HUMAN	leucine rich repeat containing 16A	1037	Inhibits capping activity of CAPZA2 (By similarity).				actin filament organization|blood coagulation|cell migration|lamellipodium assembly|ruffle organization|urate metabolic process	cytosol|lamellipodium|nucleus				ovary(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4						GGTGACCAAAATGGATTCCAA	0.343													5	60					0	0	0.001168	0	0	
HIST1H1A	3024	broad.mit.edu	37	6	26017792	26017792	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:26017792G>A	uc003nfo.2	-	1	249	c.169C>T	c.(169-171)CGT>TGT	p.R57C	HIST1H3A_uc003nfp.1_5'Flank	NM_005325	NP_005316	Q02539	H11_HUMAN	histone cluster 1, H1a	57	H15.				nucleosome assembly|spermatogenesis	nucleosome|nucleus	DNA binding			ovary(2)	2						ACACCACCACGCTCCTTAGAG	0.572													4	29					0	0	0.009096	0	0	
HFE	3077	broad.mit.edu	37	6	26093362	26093362	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:26093362G>A	uc003nfx.1	+	5	1068	c.908G>A	c.(907-909)GGC>GAC	p.G303D	HFE_uc003nfy.1_Missense_Mutation_p.G280D|HFE_uc010jqe.1_Missense_Mutation_p.G300D|HFE_uc003nfz.1_Missense_Mutation_p.G215D|HFE_uc003ngd.1_Missense_Mutation_p.G201D|HFE_uc003nga.1_Missense_Mutation_p.G289D|HFE_uc003ngb.1_Missense_Mutation_p.G197D|HFE_uc003ngc.1_Missense_Mutation_p.G211D|HFE_uc003nge.1_Missense_Mutation_p.G123D|HFE_uc003ngf.1_Missense_Mutation_p.G31D	NM_000410	NP_000401	Q30201	HFE_HUMAN	hemochromatosis protein isoform 1 precursor	303	Connecting peptide.|Extracellular (Potential).				antigen processing and presentation of peptide antigen via MHC class I|cellular iron ion homeostasis|immune response|iron ion transport|protein complex assembly|receptor-mediated endocytosis	apical part of cell|basal part of cell|cytoplasmic vesicle|early endosome|integral to plasma membrane|MHC class I protein complex|perinuclear region of cytoplasm|recycling endosome	protein binding				0						TCACCGTCTGGCACCCTAGTC	0.448									Hemochromatosis				11	74					0	0	0.008291	0	0	
HIST1H1T	3010	broad.mit.edu	37	6	26107824	26107824	+	Silent	SNP	G	A	A	rs143215132	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:26107824G>A	uc003ngj.2	-	1	541	c.498C>T	c.(496-498)AGC>AGT	p.S166S		NM_005323	NP_005314	P22492	H1T_HUMAN	histone cluster 1, H1t	166					cell differentiation|multicellular organismal development|nucleosome assembly|spermatogenesis	nucleosome	DNA binding			ovary(2)	2						CCTTTCTCCCGCTCCTAACAG	0.473													25	77					0	0	0.006320	0	0	
HIST1H2AC	8334	broad.mit.edu	37	6	26124765	26124765	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:26124765C>T	uc003ngm.2	+	1	393	c.305C>T	c.(304-306)ACC>ATC	p.T102I	HIST1H2BC_uc003ngk.3_5'Flank|HIST1H2BC_uc003ngl.2_5'Flank|HIST1H2AC_uc003ngn.2_RNA|HIST1H2AC_uc003ngo.2_RNA|HIST1H2AC_uc003ngp.2_Missense_Mutation_p.T102I	NM_003512	NP_003503	Q93077	H2A1C_HUMAN	histone cluster 1, H2ac	102					nucleosome assembly	nucleosome|nucleus	DNA binding				0						GGCCGGGTGACCATTGCTCAG	0.582													21	92					0	0	0.003954	0	0	
HIST1H3E	8353	broad.mit.edu	37	6	26225715	26225715	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:26225715C>T	uc003nhb.2	+	2	693	c.333C>T	c.(331-333)TGC>TGT	p.C111C	HIST1H3E_uc003nhc.3_Silent_p.C111C	NM_021018	NP_066298	P68431	H31_HUMAN	histone cluster 1, H3f	111					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding				0		all_hematologic(11;0.0223)|Acute lymphoblastic leukemia(11;0.0351)				CCAACCTGTGCGCTATTCATG	0.567											OREG0017240	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	84					0	0	0.000978	0	0	
HIST1H2BH	8345	broad.mit.edu	37	6	26252014	26252014	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:26252014C>T	uc003nhh.2	+	1	136	c.136C>T	c.(136-138)CTG>TTG	p.L46L	HIST1H3F_uc003nhg.1_5'Flank	NM_003524	NP_003515	Q93079	H2B1H_HUMAN	histone cluster 1, H2bh	46					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(3)	3						TTACAAGGTGCTGAAGCAAGT	0.557													45	154					0	0	0.003610	0	0	
BTN2A2	10385	broad.mit.edu	37	6	26390250	26390250	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:26390250G>A	uc003nhq.2	+	5	828	c.742G>A	c.(742-744)GCA>ACA	p.A248T	BTN2A2_uc011dkf.1_Missense_Mutation_p.A132T|BTN2A2_uc011dkg.1_Missense_Mutation_p.A154T|BTN2A2_uc003nhr.2_Missense_Mutation_p.A132T|BTN2A2_uc011dkh.1_Missense_Mutation_p.A38T|BTN2A2_uc003nhs.2_Missense_Mutation_p.A248T|BTN2A2_uc003nht.2_Missense_Mutation_p.A248T|BTN2A2_uc011dki.1_5'UTR	NM_006995	NP_008926	Q8WVV5	BT2A2_HUMAN	butyrophilin, subfamily 2, member A2 isoform a	248	Extracellular (Potential).				negative regulation of activated T cell proliferation|negative regulation of cellular metabolic process|negative regulation of cytokine secretion	integral to membrane					0						TATGCCCAGCGCATCTCCCTG	0.493													21	92					0	0	0.003330	0	0	
BTN2A2	10385	broad.mit.edu	37	6	26392964	26392964	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:26392964C>T	uc003nhq.2	+	8	1427	c.1341C>T	c.(1339-1341)GGC>GGT	p.G447G	BTN2A2_uc011dkg.1_3'UTR|BTN2A2_uc003nhr.2_Silent_p.G331G|BTN2A2_uc011dkh.1_Silent_p.G237G|BTN2A2_uc003nhs.2_Intron|BTN2A2_uc003nht.2_Silent_p.G447G|BTN2A2_uc011dki.1_3'UTR	NM_006995	NP_008926	Q8WVV5	BT2A2_HUMAN	butyrophilin, subfamily 2, member A2 isoform a	447	B30.2/SPRY.|Cytoplasmic (Potential).				negative regulation of activated T cell proliferation|negative regulation of cellular metabolic process|negative regulation of cytokine secretion	integral to membrane					0						GCCGGGTGGGCGTCTTCCTGG	0.537													17	49					0	0	0.010504	0	0	
BTN2A3	54718	broad.mit.edu	37	6	26431654	26431654	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:26431654G>A	uc011dkl.1	+	6	1602	c.1572G>A	c.(1570-1572)ACG>ACA	p.T524T	BTN2A3_uc011dkm.1_RNA					RecName: Full=Butyrophilin subfamily 2 member A3; Flags: Precursor;												0						TGGAAGACACGCCCTCCTCCC	0.577													9	90					0	0	0.006214	0	0	
BTN3A3	10384	broad.mit.edu	37	6	26452025	26452025	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:26452025C>T	uc003nhz.2	+	11	1321	c.1141C>T	c.(1141-1143)CGT>TGT	p.R381C	BTN3A3_uc003nia.2_Missense_Mutation_p.R339C|BTN3A3_uc011dkn.1_Missense_Mutation_p.R332C	NM_006994	NP_008925	O00478	BT3A3_HUMAN	butyrophilin, subfamily 3, member A3 isoform a	381	B30.2/SPRY.|Cytoplasmic (Potential).					integral to membrane					0						ATTTGAATGGCGTTACTGTGT	0.522													20	74					0	0	0.003330	0	0	
ABT1	29777	broad.mit.edu	37	6	26597319	26597319	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:26597319T>C	uc003nii.2	+	1	140	c.109T>C	c.(109-111)TGT>CGT	p.C37R		NM_013375	NP_037507	Q9ULW3	ABT1_HUMAN	activator of basal transcription 1	37					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleolus	DNA binding|nucleotide binding|protein binding|RNA binding|transcription coactivator activity			ovary(1)	1						AGAAGCGGCCTGTGGCAGCAA	0.612													4	13					0	0	0.001984	0	0	
HIST1H2BN	8341	broad.mit.edu	37	6	27806762	27806762	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:27806762C>T	uc003njv.2	+	1	323	c.323C>T	c.(322-324)GCC>GTC	p.A108V	HIST1H2AK_uc003njs.2_5'Flank|HIST1H2BN_uc003njt.1_RNA|HIST1H2BN_uc003nju.1_Missense_Mutation_p.A108V	NM_003520	NP_003511	Q99877	H2B1N_HUMAN	histone cluster 1, H2bn	108					nucleosome assembly	nucleosome|nucleus	DNA binding				0						GGGGAGCTGGCCAAGCACGCG	0.677													4	67					0	0	0.001168	0	0	
ZNF193	7746	broad.mit.edu	37	6	28200861	28200861	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:28200861C>T	uc003nkq.1	+	4	1205	c.1090C>T	c.(1090-1092)CGA>TGA	p.R364*	ZNF193_uc003nkr.1_Nonsense_Mutation_p.R364*|ZNF193_uc010jqz.1_Nonsense_Mutation_p.R415*	NM_006299	NP_006290	O15535	ZN193_HUMAN	zinc finger protein 193	364					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CACAGGGGAGCGACCTCACCA	0.498													8	52					0	0	0.004482	0	0	
PGBD1	84547	broad.mit.edu	37	6	28251950	28251950	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:28251950G>C	uc003nky.2	+	2	730	c.360G>C	c.(358-360)GAG>GAC	p.E120D	PGBD1_uc003nkz.2_Missense_Mutation_p.E120D	NM_032507	NP_115896	Q96JS3	PGBD1_HUMAN	piggyBac transposable element derived 1	120	SCAN box.				viral reproduction	membrane|nucleus	scavenger receptor activity|sequence-specific DNA binding transcription factor activity			ovary(4)	4						CAGTGCTGGAGAATCTAGAGA	0.517													16	81					0	0	0.008871	0	0	
OR14J1	442191	broad.mit.edu	37	6	29274617	29274617	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:29274617C>T	uc011dln.1	+	1	151	c.151C>T	c.(151-153)CGT>TGT	p.R51C		NM_030946	NP_112208	Q9UGF5	O14J1_HUMAN	olfactory receptor, family 5, subfamily U member	51	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TACCGTGGACCGTCGTCTCCA	0.468													36	126					0	0	0.004878	0	0	
OR5V1	81696	broad.mit.edu	37	6	29323210	29323210	+	Missense_Mutation	SNP	C	T	T	rs141436521	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:29323210C>T	uc011dlo.1	-	1	845	c.763G>A	c.(763-765)GCC>ACC	p.A255T		NM_030876	NP_110503	Q9UGF6	OR5V1_HUMAN	olfactory receptor, family 5, subfamily V,	255	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|kidney(1)	4						GTAAAGATGGCGCTGCCATAA	0.453													6	64					0	0	0.001984	0	0	
OR10C1	442194	broad.mit.edu	37	6	29408113	29408113	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:29408113C>T	uc011dlp.1	+	1	321	c.321C>T	c.(319-321)GGC>GGT	p.G107G	OR11A1_uc010jrh.1_Intron	NM_013941	NP_039229	Q96KK4	O10C1_HUMAN	olfactory receptor, family 10, subfamily C,	107	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TCTTCTTTGGCGCCACGGAGT	0.612													8	41					0	0	0.001368	0	0	
OR2H1	26716	broad.mit.edu	37	6	29430238	29430238	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:29430238C>A	uc003nmi.2	+	3	1135	c.692C>A	c.(691-693)GCA>GAA	p.A231E	OR2H1_uc003nmj.1_Missense_Mutation_p.A231E|OR2H1_uc010jri.1_Missense_Mutation_p.A153E	NM_030883	NP_112145	Q9GZK4	OR2H1_HUMAN	olfactory receptor, family 2, subfamily H,	231	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TCTGCCACAGCATGGAGAAAG	0.542													15	139					1.33834e-09	1.43568e-09	0.007413	1	0	
MAS1L	116511	broad.mit.edu	37	6	29455184	29455184	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:29455184C>T	uc011dlq.1	-	1	496	c.496G>A	c.(496-498)GCC>ACC	p.A166T		NM_052967	NP_443199	P35410	MAS1L_HUMAN	MAS1 oncogene-like	166	Helical; Name=3; (Potential).					cytoplasm|integral to membrane|nucleus|plasma membrane	G-protein coupled receptor activity			ovary(7)|lung(2)	9						GTGCTGATGGCCACCAGGAGA	0.507													21	51					0	0	0.002780	0	0	
MOG	4340	broad.mit.edu	37	6	29638111	29638111	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:29638111C>T	uc003nnf.2	+	6	824	c.646C>T	c.(646-648)CCG>TCG	p.P216S	MOG_uc003nmy.1_Missense_Mutation_p.P216S|MOG_uc003nmz.2_3'UTR|MOG_uc011dlt.1_Missense_Mutation_p.P146S|MOG_uc003nna.2_Missense_Mutation_p.P100S|MOG_uc011dlu.1_Intron|MOG_uc011dlv.1_Intron|MOG_uc003nnd.2_3'UTR|MOG_uc003nne.2_Missense_Mutation_p.P216S|MOG_uc003nng.2_Intron|MOG_uc003nnh.2_Intron|MOG_uc003nni.2_Intron|MOG_uc003nnj.2_Intron|MOG_uc003nnk.2_Intron	NM_206809	NP_996532	Q16653	MOG_HUMAN	myelin oligodendrocyte glycoprotein isoform	216	Helical; (Potential).				cell adhesion|central nervous system development|positive regulation of MyD88-dependent toll-like receptor signaling pathway	integral to membrane|plasma membrane				ovary(1)	1						TGTAATTGTGCCGGTTCTTGG	0.507													5	116					0	0	0.004482	0	0	
HLA-F	3134	broad.mit.edu	37	6	29692164	29692164	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:29692164C>T	uc010jrl.2	+	3	673	c.549C>T	c.(547-549)GGC>GGT	p.G183G	HLA-F_uc003nnm.3_Silent_p.G183G|HLA-F_uc003nno.3_Silent_p.G183G|HLA-F_uc011dlx.1_Silent_p.G183G|HLA-F_uc011dly.1_RNA	NM_018950	NP_061823	P30511	HLAF_HUMAN	major histocompatibility complex, class I, F	183	Extracellular (Potential).|Alpha-2.				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|regulation of immune response|type I interferon-mediated signaling pathway	integral to membrane|MHC class I protein complex	MHC class I receptor activity				0						ACCTGGAGGGCGAGTGCCTGG	0.612													14	39					0	0	0.004990	0	0	
TRIM31	11074	broad.mit.edu	37	6	30080406	30080406	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:30080406G>A	uc003npg.1	-	2	287	c.177C>T	c.(175-177)TCC>TCT	p.S59S	TRIM31_uc003npi.3_RNA	NM_007028	NP_008959	Q9BZY9	TRI31_HUMAN	tripartite motif protein 31	59						mitochondrion	ligase activity|zinc ion binding			lung(1)	1						TCTTCCTTACGGAAGTTTTGC	0.473													6	135					0	0	0.001984	0	0	
PPP1R10	5514	broad.mit.edu	37	6	30569937	30569937	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:30569937C>T	uc003nqn.1	-	19	3041	c.2489G>A	c.(2488-2490)CGC>CAC	p.R830H	PPP1R10_uc010jsc.1_Missense_Mutation_p.R484H	NM_002714	NP_002705	Q96QC0	PP1RA_HUMAN	protein phosphatase 1, regulatory subunit 10	830	Gly-rich.				protein import into nucleus|transcription, DNA-dependent	PTW/PP1 phosphatase complex	DNA binding|protein phosphatase inhibitor activity|RNA binding|zinc ion binding			ovary(2)|lung(1)|kidney(1)	4						TTCGTGGGGGCGATGTCCACC	0.677													14	69					0	0	0.003163	0	0	
PPP1R10	5514	broad.mit.edu	37	6	30571953	30571953	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:30571953G>A	uc003nqn.1	-	14	1892	c.1340C>T	c.(1339-1341)GCG>GTG	p.A447V	PPP1R10_uc010jsc.1_Missense_Mutation_p.A101V	NM_002714	NP_002705	Q96QC0	PP1RA_HUMAN	protein phosphatase 1, regulatory subunit 10	447	Essential for PPP1CA inhibition (By similarity).|Interaction with WDR82 (By similarity).				protein import into nucleus|transcription, DNA-dependent	PTW/PP1 phosphatase complex	DNA binding|protein phosphatase inhibitor activity|RNA binding|zinc ion binding			ovary(2)|lung(1)|kidney(1)	4						CAGACGCCGCGCTGTCTCAAA	0.552													8	79					0	0	0.003080	0	0	
DHX16	8449	broad.mit.edu	37	6	30624478	30624478	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:30624478C>T	uc003nqz.2	-	14	2419	c.2207G>A	c.(2206-2208)CGC>CAC	p.R736H	DHX16_uc003nqy.2_Missense_Mutation_p.R255H|DHX16_uc011dmo.1_Missense_Mutation_p.R676H	NM_003587	NP_003578	O60231	DHX16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 16	736	Helicase C-terminal.				mRNA processing|RNA splicing	nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|RNA helicase activity			ovary(2)|kidney(2)	4						GGTATACAGGCGGAAGCACTT	0.592													8	55					0	0	0.004482	0	0	
DHX16	8449	broad.mit.edu	37	6	30633376	30633376	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:30633376C>T	uc003nqz.2	-	5	1013	c.801G>A	c.(799-801)CGG>CGA	p.R267R	DHX16_uc011dmo.1_Silent_p.R207R	NM_003587	NP_003578	O60231	DHX16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 16	267					mRNA processing|RNA splicing	nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|RNA helicase activity			ovary(2)|kidney(2)	4						TGAGCTCCTGCCGCTCGTGCC	0.632													11	41					0	0	0.001855	0	0	
DPCR1	135656	broad.mit.edu	37	6	30918709	30918709	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:30918709C>A	uc003nsg.2	+	2	2468	c.2468C>A	c.(2467-2469)ACA>AAA	p.T823K		NM_080870	NP_543146	Q3MIW9	DPCR1_HUMAN	diffuse panbronchiolitis critical region 1	388	Extracellular (Potential).|Thr-rich.					integral to membrane					0						GCAGAGCCTACAGAAAATAGA	0.488													2	1					0.004672	0.00484555	0.004672	1	0	
PSORS1C1	170679	broad.mit.edu	37	6	31106442	31106442	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:31106442C>T	uc003nsl.1	+	5	327	c.53C>T	c.(52-54)ACC>ATC	p.T18I	PSORS1C1_uc010jsj.1_Intron|PSORS1C1_uc003nsn.1_Intron|PSORS1C2_uc003nso.3_Intron	NM_014068	NP_054787	Q9UIG5	PS1C1_HUMAN	SEEK1 protein	18										ovary(1)	1						GGCACACAGACCCCAGCTTTA	0.577													20	98					0	0	0.010504	0	0	
BAT2	7916	broad.mit.edu	37	6	31595695	31595695	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:31595695C>T	uc003nvb.3	+	12	1693	c.1444C>T	c.(1444-1446)CGC>TGC	p.R482C	BAT2_uc011dnv.1_RNA|BAT2_uc003nvc.3_Missense_Mutation_p.R482C	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	482	4 X 57 AA type A repeats.|2 X type B repeats.					cytoplasm|nucleus	protein binding				0						GCAAGAAGAGCGCCGGGCAGC	0.632													5	61					0	0	0.001168	0	0	
BAT2	7916	broad.mit.edu	37	6	31597080	31597080	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:31597080C>T	uc003nvb.3	+	13	2174	c.1925C>T	c.(1924-1926)TCG>TTG	p.S642L	BAT2_uc011dnv.1_Intron|BAT2_uc003nvc.3_Missense_Mutation_p.S642L	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	642	4 X 57 AA type A repeats.					cytoplasm|nucleus	protein binding				0						TATCAGAAGTCGTTGCCTCCT	0.547													27	81					0	0	0.006999	0	0	
LY6G6F	259215	broad.mit.edu	37	6	31675769	31675769	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:31675769C>T	uc003nwa.1	+	3	504	c.504C>T	c.(502-504)GGC>GGT	p.G168G	BAT5_uc011dnz.1_Intron|LY6G6F_uc003nwb.1_Silent_p.G168G	NM_001003693	NP_001003693	Q5SQ64	LY66F_HUMAN	G6f protein precursor	168	Extracellular (Potential).					integral to membrane|plasma membrane				breast(1)|central_nervous_system(1)	2						CCGTGAGGGGCCGTGTTCAGT	0.622													6	59					0	0	0.001168	0	0	
DDAH2	23564	broad.mit.edu	37	6	31695064	31695064	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:31695064C>T	uc003nwp.2	-	6	1439	c.808G>A	c.(808-810)GCC>ACC	p.A270T	DDAH2_uc003nwq.2_Missense_Mutation_p.A270T	NM_013974	NP_039268	O95865	DDAH2_HUMAN	dimethylarginine dimethylaminohydrolase 2	270					anti-apoptosis|arginine catabolic process|citrulline metabolic process|nitric oxide biosynthetic process|nitric oxide mediated signal transduction	cytoplasm	dimethylargininase activity|protein binding				0					L-Citrulline(DB00155)	CTGAGCCCGGCGCCAGCCTTC	0.617													15	57					0	0	0.004007	0	0	
MSH5	4439	broad.mit.edu	37	6	31713064	31713064	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:31713064C>T	uc003nwv.1	+	9	813	c.734C>T	c.(733-735)GCC>GTC	p.A245V	MSH5_uc003nwt.1_Missense_Mutation_p.A262V|MSH5_uc003nwu.1_Missense_Mutation_p.A245V|MSH5_uc003nww.1_Missense_Mutation_p.A245V|MSH5_uc003nwx.1_Missense_Mutation_p.A262V|MSH5_uc011dof.1_Intron	NM_172166	NP_751898	O43196	MSH5_HUMAN	mutS homolog 5 isoform c	245					chiasma assembly|homologous chromosome segregation|meiotic prophase II|mismatch repair|reciprocal meiotic recombination	synaptonemal complex	ATP binding|DNA-dependent ATPase activity|mismatched DNA binding			ovary(2)|breast(1)	3						TACAAAGTGGCCAGTGGACTG	0.483								Direct_reversal_of_damage|MMR					6	50					0	0	0.001984	0	0	
SLC44A4	80736	broad.mit.edu	37	6	31833122	31833122	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:31833122G>A	uc010jti.2	-	17	1796	c.1730C>T	c.(1729-1731)GCG>GTG	p.A577V	NEU1_uc003nxq.3_5'Flank|NEU1_uc010jtg.2_5'Flank|NEU1_uc003nxr.3_5'Flank|NEU1_uc010jth.2_5'Flank|NEU1_uc003nxs.3_5'Flank	NM_025257	NP_079533	Q53GD3	CTL4_HUMAN	choline transporter-like protein 4	577	Helical; (Potential).					integral to membrane|plasma membrane	choline transmembrane transporter activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4					Choline(DB00122)	TAGCATGAACGCATTTTTGGC	0.567													36	118					0	0	0.006999	0	0	
ZBTB12	221527	broad.mit.edu	37	6	31868726	31868726	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:31868726G>A	uc003nyd.1	-	2	533	c.357C>T	c.(355-357)TGC>TGT	p.C119C	C2_uc003nyc.2_Intron|C2_uc011doo.1_Intron|C2_uc011dop.1_5'Flank	NM_181842	NP_862825	Q9Y330	ZBT12_HUMAN	zinc finger and BTB domain containing 12	119					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GGGCATTCCGGCATTTCTCCA	0.567													9	59					0	0	0.008291	0	0	
CFB	629	broad.mit.edu	37	6	31915615	31915615	+	Missense_Mutation	SNP	G	A	A	rs145082719		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:31915615G>A	uc003nyj.3	+	5	1033	c.755G>A	c.(754-756)GGC>GAC	p.G252D	CFB_uc011dor.1_Missense_Mutation_p.G754D|CFB_uc003nyi.2_Missense_Mutation_p.G252D	NM_001710	NP_001701	P00751	CFAB_HUMAN	complement factor B preproprotein	252					complement activation, alternative pathway|proteolysis	extracellular region|plasma membrane	complement binding|serine-type endopeptidase activity			skin(1)	1						GATGGGCACGGCCCAGGTTTG	0.567													8	163					0	0	0.003080	0	0	
DOM3Z	1797	broad.mit.edu	37	6	31938887	31938887	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:31938887G>A	uc003nyo.1	-	2	928	c.394C>T	c.(394-396)CGG>TGG	p.R132W	DOM3Z_uc003nyp.1_Missense_Mutation_p.R132W|DOM3Z_uc003nyq.1_5'UTR|DOM3Z_uc003nyr.1_Missense_Mutation_p.R132W|DOM3Z_uc003nys.1_Missense_Mutation_p.R132W|DOM3Z_uc010jtl.1_3'UTR|STK19_uc003nyt.2_5'Flank|STK19_uc011dow.1_5'Flank|STK19_uc011dox.1_5'Flank|STK19_uc003nyv.2_5'Flank|STK19_uc003nyw.2_5'Flank|STK19_uc010jtn.1_5'Flank	NM_005510	NP_005501	O77932	DOM3Z_HUMAN	DOM-3 homolog Z	132		GDP (By similarity).					identical protein binding|metal ion binding|nucleotide binding				0						AGGTGCCCCCGCCACGTCACT	0.597													9	16					0	0	0.008291	0	0	
TNXB	7148	broad.mit.edu	37	6	32017064	32017064	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:32017064G>A	uc003nzl.2	-	28	9936	c.9734C>T	c.(9733-9735)TCC>TTC	p.S3245F	TNXB_uc003nzh.1_5'Flank	NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	3292	Fibronectin type-III 24.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						GCCCACGGTGGACACTGGGCC	0.647													4	13					0	0	0.009096	0	0	
TNXB	7148	broad.mit.edu	37	6	32020573	32020573	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:32020573G>A	uc003nzl.2	-	26	9185	c.8983C>T	c.(8983-8985)CGT>TGT	p.R2995C		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	3042	Fibronectin type-III 22.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						CCCCTGACACGCACCACCTGG	0.682													7	13					0	0	0.003080	0	0	
TNXB	7148	broad.mit.edu	37	6	32041456	32041456	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:32041456C>T	uc003nzl.2	-	12	4851	c.4649G>A	c.(4648-4650)CGC>CAC	p.R1550H		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	1637	Fibronectin type-III 8.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						GGGGCCCATGCGTTGCCCATC	0.567													5	22					0	0	0.001168	0	0	
TNXB	7148	broad.mit.edu	37	6	32052264	32052264	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:32052264C>T	uc003nzl.2	-	8	3573	c.3371G>A	c.(3370-3372)CGC>CAC	p.R1124H		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	1211	Fibronectin type-III 4.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						TTTGTACTTGCGGCCAGGATC	0.587													5	43					0	0	0.001984	0	0	
TNXB	7148	broad.mit.edu	37	6	32063527	32063527	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:32063527G>A	uc003nzl.2	-	3	2305	c.2103C>T	c.(2101-2103)GGC>GGT	p.G701G		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	701	EGF-like 18.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						ACACACACTGGCCTGCCCGGC	0.682													6	15					0	0	0.003080	0	0	
NOTCH4	4855	broad.mit.edu	37	6	32165126	32165126	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:32165126G>A	uc003obb.2	-	27	5141	c.5002C>T	c.(5002-5004)CGC>TGC	p.R1668C	GPSM3_uc003oaz.2_5'Flank|NOTCH4_uc011dpt.1_Missense_Mutation_p.R77C|NOTCH4_uc003oba.2_Missense_Mutation_p.R328C|NOTCH4_uc011dpu.1_RNA|NOTCH4_uc011dpv.1_RNA|NOTCH4_uc011dpw.1_Missense_Mutation_p.R77C	NM_004557	NP_004548	Q99466	NOTC4_HUMAN	notch4 preproprotein	1668	Cytoplasmic (Potential).|ANK 2.				cell fate determination|embryo development|hemopoiesis|mammary gland development|negative regulation of endothelial cell differentiation|Notch receptor processing|Notch signaling pathway|patterning of blood vessels|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|protein heterodimerization activity|receptor activity			lung(8)|ovary(5)|breast(4)|central_nervous_system(3)|upper_aerodigestive_tract(1)|skin(1)	22						AGGGGTGTGCGCCCTGCCCGG	0.657													7	27					0	0	0.008291	0	0	
NOTCH4	4855	broad.mit.edu	37	6	32166736	32166736	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:32166736C>T	uc003obb.2	-	24	4641	c.4502G>A	c.(4501-4503)CGG>CAG	p.R1501Q	NOTCH4_uc011dpt.1_5'Flank|NOTCH4_uc003oba.2_Missense_Mutation_p.R164Q|NOTCH4_uc011dpu.1_RNA|NOTCH4_uc011dpv.1_RNA|NOTCH4_uc011dpw.1_5'Flank	NM_004557	NP_004548	Q99466	NOTC4_HUMAN	notch4 preproprotein	1501	Cytoplasmic (Potential).				cell fate determination|embryo development|hemopoiesis|mammary gland development|negative regulation of endothelial cell differentiation|Notch receptor processing|Notch signaling pathway|patterning of blood vessels|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|protein heterodimerization activity|receptor activity			lung(8)|ovary(5)|breast(4)|central_nervous_system(3)|upper_aerodigestive_tract(1)|skin(1)	22						TAGTGGGGGCCGGCGTCGGTG	0.602													22	64					0	0	0.008361	0	0	
C6orf10	10665	broad.mit.edu	37	6	32261736	32261736	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:32261736G>A	uc011dpy.1	-	12	887	c.714C>T	c.(712-714)GGC>GGT	p.G238G	C6orf10_uc011dpx.1_Silent_p.G20G	NM_006781	NP_006772	Q5SRN2	CF010_HUMAN	chromosome 6 open reading frame 10	238						integral to membrane				skin(1)	1						ACCTTGCAGTGCCTCCACATT	0.368													12	122					0	0	0.000978	0	0	
BRD2	6046	broad.mit.edu	37	6	32944496	32944496	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:32944496G>A	uc003ocn.3	+	7	2684	c.983G>A	c.(982-984)CGC>CAC	p.R328H	BRD2_uc003oco.2_RNA|BRD2_uc003ocq.3_Missense_Mutation_p.R328H|BRD2_uc003ocp.3_Missense_Mutation_p.R208H|BRD2_uc010juh.2_Missense_Mutation_p.R328H	NM_005104	NP_005095	P25440	BRD2_HUMAN	bromodomain containing 2	328					spermatogenesis	nucleus	protein serine/threonine kinase activity			central_nervous_system(3)|stomach(2)	5						AAGCCCCCACGCAAAGACTTG	0.522													16	102					0	0	0.004990	0	0	
COL11A2	1302	broad.mit.edu	37	6	33138611	33138611	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:33138611C>T	uc003ocx.1	-	46	3678	c.3450G>A	c.(3448-3450)GGG>GGA	p.G1150G	COL11A2_uc010jul.1_Intron|COL11A2_uc003ocy.1_Silent_p.G1064G|COL11A2_uc003ocz.1_Silent_p.G1043G	NM_080680	NP_542411	P13942	COBA2_HUMAN	collagen, type XI, alpha 2 isoform 1	1150	Triple-helical region.				cartilage development|cell adhesion|collagen fibril organization|sensory perception of sound|soft palate development	collagen type XI	extracellular matrix structural constituent conferring tensile strength|protein binding, bridging			ovary(3)|skin(2)	5						GTCCTGGGGGCCCATTGAATC	0.607													6	70					0	0	0.003080	0	0	
VPS52	6293	broad.mit.edu	37	6	33236902	33236902	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:33236902G>A	uc003odm.1	-	6	647	c.437C>T	c.(436-438)ACA>ATA	p.T146I	VPS52_uc003odn.1_Missense_Mutation_p.T21I|VPS52_uc003odo.1_Missense_Mutation_p.T71I|VPS52_uc011dqy.1_Missense_Mutation_p.T21I|VPS52_uc011dqz.1_Missense_Mutation_p.T21I|RPS18_uc003odp.1_5'Flank|RPS18_uc010jum.1_5'Flank	NM_022553	NP_072047	Q8N1B4	VPS52_HUMAN	vacuolar protein sorting 52	146					protein transport	endosome membrane|Golgi apparatus				ovary(4)|skin(1)	5						TTCCTGCAGTGTCCGGATCTC	0.542													17	163					0	0	0.010504	0	0	
TAPBP	6892	broad.mit.edu	37	6	33273060	33273060	+	Missense_Mutation	SNP	C	T	T	rs146216992		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:33273060C>T	uc003odx.1	-	4	745	c.574G>A	c.(574-576)GCC>ACC	p.A192T	TAPBP_uc010jus.1_Missense_Mutation_p.A210T|TAPBP_uc003ody.2_Missense_Mutation_p.A192T|TAPBP_uc003odz.2_Missense_Mutation_p.A192T|TAPBP_uc010jut.1_Missense_Mutation_p.A105T|TAPBP_uc011drc.1_Missense_Mutation_p.A192T	NM_003190	NP_003181	O15533	TPSN_HUMAN	tapasin isoform 1 precursor	192	Lumenal (Potential).				antigen processing and presentation of endogenous peptide antigen via MHC class I|immune response|peptide antigen stabilization|protein complex assembly|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|MHC class I peptide loading complex|microsome	MHC class I protein binding|peptide antigen binding|peptide antigen-transporting ATPase activity|TAP1 binding|TAP2 binding|unfolded protein binding			ovary(1)	1						AGAGATGAGGCGGCCTCGGAG	0.632													5	21					0	0	0.001984	0	0	
DAXX	1616	broad.mit.edu	37	6	33287520	33287520	+	Missense_Mutation	SNP	C	T	T	rs141395832	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:33287520C>T	uc003oec.2	-	6	1781	c.1577G>A	c.(1576-1578)CGC>CAC	p.R526H	ZBTB22_uc003oeb.2_5'Flank|ZBTB22_uc010juu.2_5'Flank|DAXX_uc011drd.1_Missense_Mutation_p.R451H|DAXX_uc011dre.1_Missense_Mutation_p.R538H|DAXX_uc003oed.2_Missense_Mutation_p.R526H	NM_001350	NP_001341	Q9UER7	DAXX_HUMAN	death-domain associated protein isoform a	526	Asp/Glu-rich (acidic).|Interaction with MAP3K5.|Necessary for interaction with USP7.				activation of JUN kinase activity|androgen receptor signaling pathway|apoptosis|induction of apoptosis via death domain receptors|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|regulation of protein ubiquitination|transcription, DNA-dependent	chromosome, centromeric region|cytosol|nucleolus|PML body	androgen receptor binding|heat shock protein binding|p53 binding|protein homodimerization activity|protein N-terminus binding|receptor signaling protein activity|transcription factor binding|ubiquitin protein ligase binding			pancreas(18)|ovary(2)|skin(2)|prostate(1)	23						TGACACTATGCGTCCTTTGTT	0.517			Mis|F|N		Pancreatic neuroendocrine tumors								14	52					0	0	0.003163	0	0	
DAXX	1616	broad.mit.edu	37	6	33288785	33288785	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:33288785C>T	uc003oec.2	-	3	971	c.767G>A	c.(766-768)CGC>CAC	p.R256H	DAXX_uc011drd.1_Missense_Mutation_p.R181H|DAXX_uc011dre.1_Missense_Mutation_p.R268H|DAXX_uc003oed.2_Missense_Mutation_p.R256H|DAXX_uc010juw.2_Missense_Mutation_p.R181H	NM_001350	NP_001341	Q9UER7	DAXX_HUMAN	death-domain associated protein isoform a	256					activation of JUN kinase activity|androgen receptor signaling pathway|apoptosis|induction of apoptosis via death domain receptors|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|regulation of protein ubiquitination|transcription, DNA-dependent	chromosome, centromeric region|cytosol|nucleolus|PML body	androgen receptor binding|heat shock protein binding|p53 binding|protein homodimerization activity|protein N-terminus binding|receptor signaling protein activity|transcription factor binding|ubiquitin protein ligase binding			pancreas(18)|ovary(2)|skin(2)|prostate(1)	23						GTAGGGGATGCGCTGCTCTAT	0.582			Mis|F|N		Pancreatic neuroendocrine tumors								10	35					0	0	0.001368	0	0	
LYPLA2P1	653639	broad.mit.edu	37	6	33333626	33333626	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:33333626G>A	uc003shx.2	-	1	514	c.380C>T	c.(379-381)GCC>GTC	p.A127V		NR_001444				SubName: Full=Lysophospholipase II; Flags: Fragment;												0						GCAGGTGAGGGCCATGTAGAG	0.607													4	74					0	0	0.009096	0	0	
PHF1	5252	broad.mit.edu	37	6	33380151	33380151	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:33380151G>A	uc003oeh.2	+	2	347	c.111G>A	c.(109-111)GTG>GTA	p.V37V	PHF1_uc011drh.1_RNA|PHF1_uc003oei.2_Silent_p.V37V|PHF1_uc010jux.2_5'UTR	NM_024165	NP_077084	O43189	PHF1_HUMAN	PHD finger protein 1 isoform b	37					chromatin modification	nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Ovarian(999;0.0443)				GTCAAGATGTGCTGGCCAGAT	0.567													16	61					0	0	0.006122	0	0	
CUTA	51596	broad.mit.edu	37	6	33385291	33385291	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:33385291C>T	uc003oej.1	-	2	512	c.224G>A	c.(223-225)TGC>TAC	p.C75Y	CUTA_uc003oek.1_Missense_Mutation_p.C52Y|CUTA_uc003oel.1_Missense_Mutation_p.C52Y|CUTA_uc003oem.1_Missense_Mutation_p.C52Y|CUTA_uc003oen.1_Missense_Mutation_p.C94Y|SYNGAP1_uc003oeo.1_5'Flank|SYNGAP1_uc011dri.1_5'Flank|SYNGAP1_uc010juy.2_5'Flank	NM_001014840	NP_001014840	O60888	CUTA_HUMAN	cutA divalent cation tolerance homolog isoform	75					protein localization|response to metal ion	membrane	enzyme binding				0						CTCGTTGGGGCAAGTAACAAA	0.622													26	107					0	0	0.005443	0	0	
SYNGAP1	8831	broad.mit.edu	37	6	33403339	33403339	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:33403339C>T	uc011dri.1	+	7	906	c.711C>T	c.(709-711)GCC>GCT	p.A237A	SYNGAP1_uc003oeo.1_Silent_p.A222A|SYNGAP1_uc010juy.2_Silent_p.A222A|SYNGAP1_uc010juz.2_5'Flank	NM_006772	NP_006763	Q96PV0	SYGP1_HUMAN	synaptic Ras GTPase activating protein 1	237	PH.				negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity|SH3 domain binding			ovary(4)	4						GGTCTGCGGCCGAAAGAGACA	0.512													17	225					0	0	0.001882	0	0	
ITPR3	3710	broad.mit.edu	37	6	33638955	33638955	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:33638955C>T	uc011drk.1	+	21	2819	c.2600C>T	c.(2599-2601)GCG>GTG	p.A867V		NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	867	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						GTCAGCCTGGCGCACAATCTC	0.682													8	43					0	0	0.002450	0	0	
ITPR3	3710	broad.mit.edu	37	6	33646527	33646527	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:33646527C>T	uc011drk.1	+	30	4102	c.3883C>T	c.(3883-3885)CGC>TGC	p.R1295C		NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	1295	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						CACGCACGGGCGCCATGTGCA	0.577													4	22					0	0	0.000602	0	0	
ITPR3	3710	broad.mit.edu	37	6	33661334	33661334	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:33661334A>G	uc011drk.1	+	56	7856	c.7637A>G	c.(7636-7638)GAC>GGC	p.D2546G	ITPR3_uc003oey.2_Missense_Mutation_p.D633G	NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	2546	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						CTGGAGAGGGACAAGTTTGAT	0.537													9	50					0	0	0.001368	0	0	
NUDT3	11165	broad.mit.edu	37	6	34309727	34309727	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:34309727C>T	uc003ojl.2	-	2	424	c.122G>A	c.(121-123)CGC>CAC	p.R41H		NM_006703	NP_006694	O95989	NUDT3_HUMAN	nudix-type motif 3	41	Nudix hydrolase.	Substrate.			cell-cell signaling|diadenosine polyphosphate catabolic process|diphosphoinositol polyphosphate catabolic process	cytoplasm	diphosphoinositol-polyphosphate diphosphatase activity|magnesium ion binding				0						GTCTGGATGGCGACTACTGCT	0.507													13	37					0	0	0.002450	0	0	
ANKS1A	23294	broad.mit.edu	37	6	34949512	34949512	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:34949512C>T	uc003ojx.3	+	4	623	c.481C>T	c.(481-483)CAC>TAC	p.H161Y	ANKS1A_uc011dss.1_Missense_Mutation_p.H161Y|ANKS1A_uc011dst.1_5'UTR|ANKS1A_uc010jvp.1_5'UTR|ANKS1A_uc010jvr.1_RNA	NM_015245	NP_056060	Q92625	ANS1A_HUMAN	ankyrin repeat and sterile alpha motif domain	161	ANK 3.					cytoplasm	protein binding			ovary(3)|upper_aerodigestive_tract(1)	4						GCAGTATGGCCACACAGAGGT	0.547													6	49					0	0	0.006214	0	0	
ANKS1A	23294	broad.mit.edu	37	6	35053698	35053698	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:35053698C>T	uc003ojx.3	+	22	3430	c.3288C>T	c.(3286-3288)GGC>GGT	p.G1096G	ANKS1A_uc011dss.1_Intron|ANKS1A_uc011dst.1_Silent_p.G637G|ANKS1A_uc010jvp.1_Silent_p.G470G	NM_015245	NP_056060	Q92625	ANS1A_HUMAN	ankyrin repeat and sterile alpha motif domain	1096						cytoplasm	protein binding			ovary(3)|upper_aerodigestive_tract(1)	4						CTCGGGTCGGCGTGAGGAAAT	0.622													8	13					0	0	0.004482	0	0	
TCP11	6954	broad.mit.edu	37	6	35090014	35090014	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:35090014G>A	uc003okd.2	-	5	678	c.497C>T	c.(496-498)GCC>GTC	p.A166V	TCP11_uc003ojz.1_Missense_Mutation_p.A91V|TCP11_uc003oka.2_Missense_Mutation_p.A91V|TCP11_uc003okb.2_Missense_Mutation_p.A90V|TCP11_uc003okc.2_Missense_Mutation_p.A90V|TCP11_uc011dsu.1_Missense_Mutation_p.A148V|TCP11_uc011dsv.1_Missense_Mutation_p.A115V|TCP11_uc011dsw.1_Missense_Mutation_p.A120V	NM_001093728	NP_001087197	Q8WWU5	TCP11_HUMAN	t-complex 11 isoform 1	153					cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				ovary(3)|skin(2)	5						GACTTTCAGGGCCCCATGTTC	0.473													21	101					0	0	0.010504	0	0	
FANCE	2178	broad.mit.edu	37	6	35423937	35423937	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:35423937G>A	uc003oko.1	+	2	847	c.662G>A	c.(661-663)CGG>CAG	p.R221Q	FANCE_uc010jvw.1_Missense_Mutation_p.R221Q	NM_021922	NP_068741	Q9HB96	FANCE_HUMAN	Fanconi anemia, complementation group E	221	Interaction with FANCC.				DNA repair	nucleoplasm	protein binding			ovary(1)|lung(1)|skin(1)	3						AAAAGATTACGGTGTTGGGAA	0.532			N|F|S			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				5	100					0	0	0.001168	0	0	
C6orf81	221481	broad.mit.edu	37	6	35716414	35716414	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:35716414G>A	uc003ola.2	+	6	898	c.871G>A	c.(871-873)GCA>ACA	p.A291T	C6orf81_uc003olb.1_Missense_Mutation_p.A254T	NM_145028	NP_659465	Q5T9G4	CF081_HUMAN	hypothetical protein LOC221481	264							binding			ovary(1)	1						GGGCCGGAACGCACCCCACTA	0.557													12	52					0	0	0.000978	0	0	
LHFPL5	222662	broad.mit.edu	37	6	35773525	35773525	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:35773525C>T	uc003olg.1	+	1	455	c.78C>T	c.(76-78)GGC>GGT	p.G26G		NM_182548	NP_872354	Q8TAF8	TMHS_HUMAN	lipoma HMGIC fusion partner-like 5	26	Helical; (Potential).					integral to membrane				skin(1)	1						GAGCCGTGGGCGTGATGTGGG	0.617													22	88					0	0	0.002780	0	0	
LHFPL5	222662	broad.mit.edu	37	6	35773571	35773571	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:35773571G>A	uc003olg.1	+	1	501	c.124G>A	c.(124-126)GCC>ACC	p.A42T		NM_182548	NP_872354	Q8TAF8	TMHS_HUMAN	lipoma HMGIC fusion partner-like 5	42	Helical; (Potential).					integral to membrane				skin(1)	1						ACTGGTCATGGCCCTCTTCAT	0.592													27	121					0	0	0.008361	0	0	
MAPK14	1432	broad.mit.edu	37	6	36020576	36020576	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:36020576C>T	uc003olp.2	+	2	698	c.217C>T	c.(217-219)CGG>TGG	p.R73W	MAPK14_uc011dth.1_Missense_Mutation_p.R73W|MAPK14_uc003olo.2_Missense_Mutation_p.R73W|MAPK14_uc003olq.2_Missense_Mutation_p.R73W|MAPK14_uc003olr.2_Missense_Mutation_p.R73W|MAPK14_uc011dti.1_5'UTR	NM_001315	NP_001306	Q16539	MK14_HUMAN	mitogen-activated protein kinase 14 isoform 1	73	Protein kinase.				activation of MAPK activity|cellular component movement|cellular response to ionizing radiation|chemotaxis|innate immune response|mRNA metabolic process|muscle cell differentiation|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of muscle cell differentiation|positive regulation of reactive oxygen species metabolic process|Ras protein signal transduction|regulation of sequence-specific DNA binding transcription factor activity|signal transduction in response to DNA damage|stress-activated MAPK cascade|stress-induced premature senescence|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase activity|MAP kinase kinase activity|protein binding			ovary(2)|stomach(1)|lung(1)|central_nervous_system(1)|skin(1)	6						CAGAGAACTGCGGTTACTTAA	0.373													18	74					0	0	0.004990	0	0	
BRPF3	27154	broad.mit.edu	37	6	36168834	36168834	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:36168834C>T	uc003olv.3	+	2	959	c.735C>T	c.(733-735)GGC>GGT	p.G245G	BRPF3_uc010jwb.2_Silent_p.G245G|BRPF3_uc011dtj.1_RNA|BRPF3_uc010jwc.2_RNA|BRPF3_uc011dtk.1_Silent_p.G245G	NM_015695	NP_056510	Q9ULD4	BRPF3_HUMAN	bromodomain and PHD finger containing, 3	245	PHD-type.				histone H3 acetylation|platelet activation|platelet degranulation	cytosol|extracellular region|MOZ/MORF histone acetyltransferase complex	protein binding|zinc ion binding			ovary(1)|skin(1)	2						AGTGCTATGGCGTCCCATACA	0.552													8	56					0	0	0.004482	0	0	
MTCH1	23787	broad.mit.edu	37	6	36938207	36938207	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:36938207C>T	uc003ond.1	-	10	997	c.997G>A	c.(997-999)GAC>AAC	p.D333N	MTCH1_uc003onc.1_Missense_Mutation_p.D316N|MTCH1_uc010jwo.1_RNA|MTCH1_uc003one.3_Missense_Mutation_p.D333N|MTCH1_uc011dtt.1_Missense_Mutation_p.D148N	NM_014341	NP_055156	Q9NZJ7	MTCH1_HUMAN	mitochondrial carrier homolog 1	333	Helical; (Potential).				activation of caspase activity|neuronal ion channel clustering|positive regulation of apoptosis|regulation of signal transduction|transport	integral to membrane|mitochondrial inner membrane	protein binding				0						GCCATGAGGTCGCCAACTAGC	0.622													14	67					0	0	0.004007	0	0	
FGD2	221472	broad.mit.edu	37	6	36993700	36993700	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:36993700C>T	uc010jwp.1	+	14	1762	c.1591C>T	c.(1591-1593)CGG>TGG	p.R531W	FGD2_uc003ong.2_Missense_Mutation_p.R253W|FGD2_uc011dtv.1_Missense_Mutation_p.R159W|FGD2_uc003onj.1_Missense_Mutation_p.R108W	NM_173558	NP_775829	Q7Z6J4	FGD2_HUMAN	FYVE, RhoGEF and PH domain containing 2	531					actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|early endosome membrane|Golgi apparatus|lamellipodium|nucleus|ruffle membrane	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			upper_aerodigestive_tract(1)|lung(1)|pancreas(1)	3						GGACAAGAGGCGGGGCATCCT	0.607													6	25					0	0	0.001168	0	0	
FTSJD2	23070	broad.mit.edu	37	6	37430612	37430612	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:37430612G>A	uc003ons.2	+	13	1586	c.1333G>A	c.(1333-1335)GTG>ATG	p.V445M		NM_015050	NP_055865	Q8N1G2	MTR1_HUMAN	FtsJ methyltransferase domain containing 2	445					mRNA capping	cytoplasm|nucleus	mRNA (nucleoside-2'-O-)-methyltransferase activity|nucleic acid binding			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						CAGGTATGTGGTGTGCAAGGG	0.498													4	69					0	0	0.009096	0	0	
MDGA1	266727	broad.mit.edu	37	6	37622633	37622633	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:37622633G>A	uc003onu.1	-	5	1834	c.655C>T	c.(655-657)CGT>TGT	p.R219C	MDGA1_uc003onw.3_5'Flank	NM_153487	NP_705691	Q8NFP4	MDGA1_HUMAN	MAM domain containing	219	Ig-like 2.				brain development|neuron migration|spinal cord association neuron differentiation	anchored to plasma membrane				central_nervous_system(2)	2						CACACGTTACGCACAGACACC	0.602													21	90					0	0	0.004656	0	0	
ZFAND3	60685	broad.mit.edu	37	6	38120051	38120051	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:38120051C>T	uc003onx.2	+	6	985	c.570C>T	c.(568-570)CAC>CAT	p.H190H		NM_021943	NP_068762	Q9H8U3	ZFAN3_HUMAN	zinc finger, AN1-type domain 3	190	AN1-type.						DNA binding|zinc ion binding			ovary(1)	1						CCGAGCAGCACGACTGCACAT	0.597													20	71					0	0	0.001882	0	0	
DNAH8	1769	broad.mit.edu	37	6	38781840	38781840	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:38781840C>T	uc003ooe.1	+	23	3217	c.2617C>T	c.(2617-2619)CGA>TGA	p.R873*		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						CCTTTATGGGCGAAAGCAGTC	0.308													22	112					0	0	0.002299	0	0	
DNAH8	1769	broad.mit.edu	37	6	38840404	38840404	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:38840404G>A	uc003ooe.1	+	48	7032	c.6432G>A	c.(6430-6432)GCG>GCA	p.A2144A		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						TAATGAAGGCGCAAACAGAAT	0.463													6	101					0	0	0.001984	0	0	
DNAH8	1769	broad.mit.edu	37	6	38840416	38840416	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:38840416C>T	uc003ooe.1	+	48	7044	c.6444C>T	c.(6442-6444)TGC>TGT	p.C2148C		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						AAACAGAATGCGGAAGGCCTC	0.483													13	99					0	0	0.003163	0	0	
DAAM2	23500	broad.mit.edu	37	6	39847178	39847178	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:39847178C>T	uc003oow.2	+	14	1926	c.1770C>T	c.(1768-1770)GAC>GAT	p.D590D	DAAM2_uc010jxc.2_Silent_p.D590D|DAAM2_uc003oox.2_Silent_p.D590D	NM_015345	NP_056160	Q86T65	DAAM2_HUMAN	dishevelled associated activator of	590	FH1.|Pro-rich.				actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)|skin(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					CCAGCAGTGACGTCCCACTCA	0.597													7	85					0	0	0.004482	0	0	
LRFN2	57497	broad.mit.edu	37	6	40400194	40400194	+	Missense_Mutation	SNP	C	T	T	rs140980612		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:40400194C>T	uc003oph.1	-	2	1124	c.659G>A	c.(658-660)CGC>CAC	p.R220H		NM_020737	NP_065788	Q9ULH4	LRFN2_HUMAN	leucine rich repeat and fibronectin type III	220	Extracellular (Potential).					cell junction|integral to membrane|postsynaptic membrane				ovary(2)|skin(1)	3	Ovarian(28;0.0418)|Colorectal(47;0.196)					AGCCTGGGAGCGGGCAAAGAT	0.587													8	27					0	0	0.003080	0	0	
UNC5CL	222643	broad.mit.edu	37	6	41002811	41002811	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:41002811C>T	uc003opi.2	-	2	92	c.3G>A	c.(1-3)ATG>ATA	p.M1I	UNC5CL_uc010jxe.1_Missense_Mutation_p.M1I	NM_173561	NP_775832	Q8IV45	UN5CL_HUMAN	unc-5 homolog C-like	1	Extracellular (Potential).				signal transduction	cytoplasm|integral to membrane				ovary(2)	2	Ovarian(28;0.0418)|Colorectal(47;0.196)					CCTGGGGGCACATTCGCCTGG	0.602													4	41					0	0	0.000602	0	0	
TFEB	7942	broad.mit.edu	37	6	41654874	41654874	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:41654874C>T	uc003oqs.1	-	8	1063	c.761G>A	c.(760-762)CGC>CAC	p.R254H	TFEB_uc003oqt.1_Missense_Mutation_p.R254H|TFEB_uc003oqu.1_Missense_Mutation_p.R268H|TFEB_uc003oqv.1_Missense_Mutation_p.R254H|TFEB_uc003oqr.1_Missense_Mutation_p.R169H	NM_007162	NP_009093	P19484	TFEB_HUMAN	transcription factor EB	254	Helix-loop-helix motif.				embryonic placenta development|humoral immune response|positive regulation of transcription from RNA polymerase II promoter	cytoplasm	sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(1)	1	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;7.61e-05)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00507)			CTCCTTGATGCGGTCATTGAT	0.537			T	ALPHA	renal (childhood epithelioid)								8	47					0	0	0.008291	0	0	
PGC	5225	broad.mit.edu	37	6	41710065	41710065	+	Missense_Mutation	SNP	C	T	T	rs143935750	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:41710065C>T	uc003ora.1	-	5	659	c.610G>A	c.(610-612)GCC>ACC	p.A204T		NM_002630	NP_002621	P20142	PEPC_HUMAN	progastricsin (pepsinogen C) precursor	204					digestion|proteolysis	extracellular space	aspartic-type endopeptidase activity				0	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;0.000132)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00507)			CTGGTGAGGGCGCCCTCCTGC	0.652													8	24					0	0	0.006214	0	0	
PGC	5225	broad.mit.edu	37	6	41711128	41711128	+	Splice_Site	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:41711128C>T	uc003ora.1	-	4	378	c.329_splice	c.e4-1	p.T110_splice		NM_002630	NP_002621	P20142	PEPC_HUMAN	progastricsin (pepsinogen C) precursor						digestion|proteolysis	extracellular space	aspartic-type endopeptidase activity				0	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;0.000132)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00507)			GAGTGACTGGCTGCAGGGGAG	0.662													9	49					0	0	0.008291	0	0	
USP49	25862	broad.mit.edu	37	6	41773964	41773964	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:41773964G>A	uc003ori.2	-	4	980	c.758C>T	c.(757-759)ACG>ATG	p.T253M		NM_018561	NP_061031	Q70CQ1	UBP49_HUMAN	ubiquitin thioesterase 49	253					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(28;0.0919)|Colorectal(47;0.121)		STAD - Stomach adenocarcinoma(11;0.000204)|Epithelial(12;0.000309)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			GCGCAGGCCCGTGACGCCTGG	0.542													10	44					0	0	0.000978	0	0	
MED20	9477	broad.mit.edu	37	6	41884626	41884626	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:41884626C>T	uc003ork.2	-	2	187	c.66G>A	c.(64-66)GAG>GAA	p.E22E	MED20_uc003orj.2_5'UTR|MED20_uc011duh.1_Silent_p.E22E|MED20_uc011dui.1_RNA|MED20_uc011duj.1_Intron	NM_004275	NP_004266	Q9H944	MED20_HUMAN	Trf (TATA binding protein-related	22					regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	mediator complex	DNA-directed RNA polymerase activity|protein binding				0	Colorectal(47;0.121)		STAD - Stomach adenocarcinoma(11;0.000204)|Epithelial(12;0.000367)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			GGGTAAGGAGCTCTACGGTTT	0.542													16	71					0	0	0.004990	0	0	
CCND3	896	broad.mit.edu	37	6	41904988	41904988	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:41904988C>T	uc003orn.2	-	3	724	c.559G>A	c.(559-561)GCC>ACC	p.A187T	CCND3_uc003orp.2_Missense_Mutation_p.A106T|CCND3_uc011duk.1_5'UTR|CCND3_uc011dum.1_Missense_Mutation_p.A106T|CCND3_uc003orm.2_Missense_Mutation_p.A137T|CCND3_uc003oro.2_Missense_Mutation_p.A115T|CCND3_uc011dul.1_Missense_Mutation_p.A115T	NM_001760	NP_001751	P30281	CCND3_HUMAN	cyclin D3 isoform 2	187					cell division|positive regulation of cyclin-dependent protein kinase activity|positive regulation of protein phosphorylation	cyclin-dependent protein kinase holoenzyme complex|cytoplasm|membrane|nucleus	protein kinase binding				0	Colorectal(47;0.121)		Epithelial(12;0.000178)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			GCACAGAGGGCCAAAAAGGTC	0.473			T	IGH@	MM								5	59					0	0	0.000602	0	0	
TRERF1	55809	broad.mit.edu	37	6	42227309	42227309	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:42227309G>A	uc003osd.2	-	9	2600	c.2037C>T	c.(2035-2037)GGC>GGT	p.G679G	TRERF1_uc011duq.1_Silent_p.G596G|TRERF1_uc003osb.2_Silent_p.G435G|TRERF1_uc003osc.2_Silent_p.G435G|TRERF1_uc003ose.2_Silent_p.G699G	NM_033502	NP_277037	Q96PN7	TREF1_HUMAN	transcriptional regulating factor 1	679	Pro-rich.|Interacts with CREBBP.				cholesterol catabolic process|homeostatic process|multicellular organismal development|positive regulation of transcription, DNA-dependent|regulation of hormone biosynthetic process|steroid biosynthetic process	nucleus	DNA bending activity|ligand-dependent nuclear receptor transcription coactivator activity|RNA polymerase II transcription cofactor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|zinc ion binding			ovary(3)|pancreas(1)|skin(1)	5	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			ACAGGGTGGCGCCCGAGTAGG	0.692													5	15					0	0	0.000602	0	0	
KIAA0240	23506	broad.mit.edu	37	6	42796383	42796383	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:42796383C>T	uc003osn.1	+	6	463	c.312C>T	c.(310-312)GAC>GAT	p.D104D	KIAA0240_uc003osm.1_Silent_p.D104D|KIAA0240_uc011duw.1_Silent_p.D104D|KIAA0240_uc003oso.1_Silent_p.D104D|KIAA0240_uc003osp.1_Silent_p.D104D	NM_015349	NP_056164	Q6AI39	K0240_HUMAN	hypothetical protein LOC23506	104										ovary(1)	1	Colorectal(47;0.196)		Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|all cancers(41;0.00524)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.104)			AACCTTTCGACATTCTTCAGA	0.468													27	99					0	0	0.004656	0	0	
KLC4	89953	broad.mit.edu	37	6	43034106	43034106	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:43034106C>T	uc003otv.1	+	5	711	c.634C>T	c.(634-636)CGG>TGG	p.R212W	KLC4_uc003otr.1_RNA|KLC4_uc011dvd.1_Missense_Mutation_p.R135W|KLC4_uc003otu.2_Missense_Mutation_p.R212W|KLC4_uc003otw.1_Missense_Mutation_p.R230W|KLC4_uc003otx.1_Missense_Mutation_p.R212W|KLC4_uc003oty.1_Missense_Mutation_p.R212W|KLC4_uc003otz.1_Missense_Mutation_p.R212W	NM_201521	NP_958929	Q9NSK0	KLC4_HUMAN	kinesin-like 8 isoform a	212	TPR 2.					cytoplasm|kinesin complex|microtubule	microtubule motor activity|protein binding			skin(3)|ovary(1)	4			all cancers(41;0.00169)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|OV - Ovarian serous cystadenocarcinoma(102;0.0376)|KIRC - Kidney renal clear cell carcinoma(2;0.0453)			AGCAAGGTTGCGGACGTTGCA	0.552													17	97					0	0	0.008871	0	0	
ABCC10	89845	broad.mit.edu	37	6	43406513	43406513	+	Missense_Mutation	SNP	G	A	A	rs140043327		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:43406513G>A	uc003ouy.1	+	8	2322	c.2107G>A	c.(2107-2109)GCC>ACC	p.A703T	ABCC10_uc003ouz.1_Missense_Mutation_p.A675T|ABCC10_uc010jyo.1_5'UTR	NM_033450	NP_258261	Q5T3U5	MRP7_HUMAN	ATP-binding cassette, sub-family C, member 10	703	ABC transporter 1.					integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(6)|central_nervous_system(1)	7	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0152)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			AGAAGCCTGCGCCCTCAATGA	0.527													18	57					0	0	0.008871	0	0	
ABCC10	89845	broad.mit.edu	37	6	43414079	43414079	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:43414079A>G	uc003ouy.1	+	16	3654	c.3439A>G	c.(3439-3441)ACA>GCA	p.T1147A	ABCC10_uc003ouz.1_Missense_Mutation_p.T1119A|ABCC10_uc010jyo.1_Missense_Mutation_p.T253A	NM_033450	NP_258261	Q5T3U5	MRP7_HUMAN	ATP-binding cassette, sub-family C, member 10	1147	ABC transmembrane type-1 2.					integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(6)|central_nervous_system(1)	7	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0152)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			CACCAGTGCCACAATGCAGTG	0.597													7	46					0	0	0.006214	0	0	
RSPH9	221421	broad.mit.edu	37	6	43638573	43638573	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:43638573C>T	uc003ovw.1	+	5	744	c.718C>T	c.(718-720)CGC>TGC	p.R240C	RSPH9_uc003ovx.1_Missense_Mutation_p.A257V	NM_152732	NP_689945	Q9H1X1	RSPH9_HUMAN	radial spoke head 9 homolog	240					cilium axoneme assembly|cilium movement	cytoplasm|cytoskeleton				upper_aerodigestive_tract(1)|skin(1)	2						GGTGGTGCTGCGCAGCCTGCT	0.617									Kartagener_syndrome				5	29					0	0	0.001168	0	0	
TMEM63B	55362	broad.mit.edu	37	6	44115223	44115223	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:44115223C>T	uc003owr.2	+	12	1037	c.973C>T	c.(973-975)CGA>TGA	p.R325*	TMEM63B_uc003owq.1_Nonsense_Mutation_p.R325*|TMEM63B_uc003ows.2_Nonsense_Mutation_p.R228*|TMEM63B_uc010jyz.2_RNA	NM_018426	NP_060896	Q5T3F8	TM63B_HUMAN	transmembrane protein 63B	325						integral to membrane	nucleotide binding|protein binding			pancreas(2)|central_nervous_system(1)	3	all_cancers(18;1.66e-06)|Lung NSC(15;0.00108)|all_lung(25;0.00278)|Hepatocellular(11;0.00309)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0215)			CTGTGTGGTGCGAGGCTGTGA	0.622													9	42					0	0	0.008291	0	0	
TCTE1	202500	broad.mit.edu	37	6	44248038	44248038	+	Silent	SNP	G	A	A	rs149052184		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:44248038G>A	uc003oxi.2	-	5	1542	c.1386C>T	c.(1384-1386)AGC>AGT	p.S462S	SPATS1_uc003oxg.2_Intron|TMEM151B_uc003oxf.2_Intron	NM_182539	NP_872345	Q5JU00	TCTE1_HUMAN	t-complex-associated testis expressed 1	462										ovary(2)|skin(2)	4	Hepatocellular(11;0.00908)|all_lung(25;0.0101)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			TGAGGTACTCGCTTTCCTGGG	0.587													8	49					0	0	0.008291	0	0	
CDC5L	988	broad.mit.edu	37	6	44364110	44364110	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:44364110C>T	uc003oxl.2	+	5	731	c.472C>T	c.(472-474)CGC>TGC	p.R158C		NM_001253	NP_001244	Q99459	CDC5L_HUMAN	CDC5-like	158	Potential.				cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	catalytic step 2 spliceosome|cytoplasm|nuclear speck|nucleolus	DNA binding|RNA binding			lung(3)|ovary(1)|kidney(1)|skin(1)	6	all_lung(25;0.00433)|Ovarian(13;0.0273)|all_hematologic(164;0.208)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			AGCCAGAGCCCGCTTGGCTAA	0.348													41	173					0	0	0.003214	0	0	
CDC5L	988	broad.mit.edu	37	6	44376319	44376319	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:44376319G>A	uc003oxl.2	+	8	1301	c.1042G>A	c.(1042-1044)GTT>ATT	p.V348I		NM_001253	NP_001244	Q99459	CDC5L_HUMAN	CDC5-like	348	Interaction with PPP1R8.				cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	catalytic step 2 spliceosome|cytoplasm|nuclear speck|nucleolus	DNA binding|RNA binding			lung(3)|ovary(1)|kidney(1)|skin(1)	6	all_lung(25;0.00433)|Ovarian(13;0.0273)|all_hematologic(164;0.208)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			CAACAACAGCGTTGCTCTTAG	0.443													24	102					0	0	0.004656	0	0	
SUPT3H	8464	broad.mit.edu	37	6	44922276	44922276	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:44922276C>T	uc003oxo.2	-	10	1000	c.682G>A	c.(682-684)GCA>ACA	p.A228T	SUPT3H_uc003oxn.1_Missense_Mutation_p.A217T|SUPT3H_uc011dvv.1_Missense_Mutation_p.A65T|SUPT3H_uc003oxp.2_Missense_Mutation_p.A217T|SUPT3H_uc011dvw.1_Missense_Mutation_p.A131T	NM_181356	NP_852001	O75486	SUPT3_HUMAN	suppressor of Ty 3 homolog isoform 2	299					histone deubiquitination|histone H3 acetylation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	STAGA complex|transcription factor TFTC complex	DNA binding|transcription coactivator activity			ovary(2)|breast(1)	3						ATTTCCATTGCGACAACATTG	0.398													6	87					0	0	0.003080	0	0	
CLIC5	53405	broad.mit.edu	37	6	45922936	45922936	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:45922936G>A	uc003oxv.3	-	2	692	c.586C>T	c.(586-588)CGC>TGC	p.R196C	CLIC5_uc003oxu.3_Missense_Mutation_p.R37C|CLIC5_uc003oxx.2_Missense_Mutation_p.R37C	NM_001114086	NP_001107558	Q9NZA1	CLIC5_HUMAN	chloride intracellular channel 5 isoform a	196	Helical; Note=After insertion into the membrane; (Potential).				female pregnancy	actin cytoskeleton|cell cortex|chloride channel complex|Golgi apparatus|Golgi apparatus|insoluble fraction|microtubule organizing center	protein binding|voltage-gated chloride channel activity			ovary(1)|skin(1)	2						ATGAAGAGGCGCTGAGAGAAA	0.488													23	45					0	0	0.004656	0	0	
ENPP4	22875	broad.mit.edu	37	6	46111218	46111218	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:46111218C>T	uc003oxy.2	+	4	1462	c.1203C>T	c.(1201-1203)TGC>TGT	p.C401C		NM_014936	NP_055751	Q9Y6X5	ENPP4_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	401	Extracellular (Potential).					integral to membrane	hydrolase activity			ovary(3)|skin(1)	4						ACCAGTGGTGCATTAATCTCC	0.413													27	144					0	0	0.002096	0	0	
TDRD6	221400	broad.mit.edu	37	6	46657655	46657655	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:46657655C>T	uc003oyj.2	+	1	1790	c.1790C>T	c.(1789-1791)GCT>GTT	p.A597V	TDRD6_uc010jze.2_Missense_Mutation_p.A591V	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	597					cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			CCAATATTGGCTGTGAAGTGC	0.448													13	54					0	0	0.003163	0	0	
GPR116	221395	broad.mit.edu	37	6	46828556	46828556	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:46828556C>T	uc003oyo.3	-	16	2564	c.2275G>A	c.(2275-2277)GCG>ACG	p.A759T	GPR116_uc011dwj.1_Missense_Mutation_p.A314T|GPR116_uc011dwk.1_Missense_Mutation_p.A188T|GPR116_uc003oyp.3_Missense_Mutation_p.A617T|GPR116_uc003oyq.3_Missense_Mutation_p.A759T|GPR116_uc010jzi.1_Missense_Mutation_p.A431T	NM_001098518	NP_001091988	Q8IZF2	GP116_HUMAN	G-protein coupled receptor 116 precursor	759	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)|skin(1)	2			Lung(136;0.192)			TCATGTTCCGCTTTGTCTATG	0.423													7	96					0	0	0.001984	0	0	
TNFRSF21	27242	broad.mit.edu	37	6	47253980	47253980	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:47253980A>G	uc003oyv.2	-	2	881	c.448T>C	c.(448-450)TGT>CGT	p.C150R		NM_014452	NP_055267	O75509	TNR21_HUMAN	tumor necrosis factor receptor superfamily,	150	Extracellular (Potential).|TNFR-Cys 3.				cellular lipid metabolic process	cytoplasm|integral to membrane	protein binding|receptor activity				0			Lung(136;0.189)			CCCACAGGACACACCGTATGG	0.537													30	171					0	0	0.009535	0	0	
C6orf138	442213	broad.mit.edu	37	6	47847321	47847321	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:47847321A>G	uc011dwm.1	-	3	1293	c.1208T>C	c.(1207-1209)GTG>GCG	p.V403A	C6orf138_uc011dwn.1_Missense_Mutation_p.V167A	NM_001013732	NP_001013754	Q6ZW05	CF138_HUMAN	hypothetical protein LOC442213	420						integral to membrane	hedgehog receptor activity			central_nervous_system(1)	1						CTGGAACCACACAGGTTTGCG	0.512													12	54					0	0	0.003163	0	0	
TFAP2B	7021	broad.mit.edu	37	6	50796340	50796340	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:50796340A>C	uc003pag.2	+	3	715	c.549A>C	c.(547-549)GAA>GAC	p.E183D		NM_003221	NP_003212	Q92481	AP2B_HUMAN	transcription factor AP-2 beta	183					nervous system development|positive regulation of transcription from RNA polymerase II promoter		protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity				0	Lung NSC(77;0.156)					AGTCAGTTGAAGATGCCAATA	0.338													25	79					0	0	0.008361	0	0	
PKHD1	5314	broad.mit.edu	37	6	51484273	51484273	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:51484273T>C	uc003pah.1	-	67	12107	c.11831A>G	c.(11830-11832)CAC>CGC	p.H3944R		NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	3944	Cytoplasmic (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					CATCAACTGGTGGGGGCACTG	0.488													17	67					0	0	0.004990	0	0	
PKHD1	5314	broad.mit.edu	37	6	51732850	51732850	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:51732850G>A	uc003pah.1	-	48	7820	c.7544C>T	c.(7543-7545)GCA>GTA	p.A2515V	PKHD1_uc010jzn.1_Missense_Mutation_p.A498V|PKHD1_uc003pai.2_Missense_Mutation_p.A2515V	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	2515	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					AAATGGAAATGCCACTAAGTT	0.388													13	59					0	0	0.001368	0	0	
PKHD1	5314	broad.mit.edu	37	6	51900433	51900433	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:51900433C>T	uc003pah.1	-	28	3460	c.3184G>A	c.(3184-3186)GCT>ACT	p.A1062T	PKHD1_uc003pai.2_Missense_Mutation_p.A1062T	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	1062	IPT/TIG 5.|Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					TTGCTTGTAGCGACATTGATG	0.448													24	127					0	0	0.003954	0	0	
GSTA4	2941	broad.mit.edu	37	6	52849393	52849393	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:52849393A>G	uc003pbc.2	-	4	347	c.283T>C	c.(283-285)TAC>CAC	p.Y95H	GSTA4_uc003pbd.2_Missense_Mutation_p.Y2H|GSTA4_uc003pbe.2_Missense_Mutation_p.Y2H|GSTA4_uc003pbf.2_Missense_Mutation_p.Y95H	NM_001512	NP_001503	O15217	GSTA4_HUMAN	glutathione S-transferase alpha 4	95	GST C-terminal.				glutathione metabolic process|xenobiotic metabolic process	cytosol	glutathione transferase activity|protein homodimerization activity				0	Lung NSC(77;0.103)				Glutathione(DB00143)	CCCTCCACGTACATGTCAATC	0.408													5	94					0	0	0.000602	0	0	
ICK	22858	broad.mit.edu	37	6	52883237	52883237	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:52883237G>A	uc003pbh.2	-	8	1044	c.554C>T	c.(553-555)GCG>GTG	p.A185V	ICK_uc003pbi.2_Missense_Mutation_p.A185V|ICK_uc003pbj.2_Missense_Mutation_p.A185V	NM_016513	NP_057597	Q9UPZ9	ICK_HUMAN	intestinal cell kinase	185	Protein kinase.				intracellular protein kinase cascade|multicellular organismal development	cytosol|nucleus	ATP binding|cyclin-dependent protein kinase activity|magnesium ion binding	p.A185A(1)		ovary(1)|large_intestine(1)|lung(1)|kidney(1)|central_nervous_system(1)	5	Lung NSC(77;0.103)					GCAGCCCACCGCCCAGACGTC	0.512													16	94					0	0	0.004007	0	0	
GCM1	8521	broad.mit.edu	37	6	52996822	52996822	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:52996822G>A	uc003pbp.2	-	4	633	c.424C>T	c.(424-426)CGC>TGC	p.R142C	GCM1_uc010jzr.2_Missense_Mutation_p.R142C	NM_003643	NP_003634	Q9NP62	GCM1_HUMAN	glial cells missing homolog a	142	GCM.					transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			central_nervous_system(1)	1	Lung NSC(77;0.0755)					AATATAAAGCGTCCGTCGTGC	0.502													5	48					0	0	0.001984	0	0	
KLHL31	401265	broad.mit.edu	37	6	53516493	53516493	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:53516493G>A	uc003pcb.3	-	3	1949	c.1808C>T	c.(1807-1809)GCC>GTC	p.A603V	uc003pcc.1_5'UTR	NM_001003760	NP_001003760	Q9H511	KLH31_HUMAN	kelch repeat and BTB (POZ) domain containing 1	603	Kelch 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent					ovary(1)	1	Lung NSC(77;0.0158)					GCCGACAGTGGCCTCGGGTAG	0.612											OREG0017507	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	33					0	0	0.001984	0	0	
GFRAL	389400	broad.mit.edu	37	6	55216125	55216125	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:55216125G>A	uc003pcm.1	+	5	531	c.445G>A	c.(445-447)GCC>ACC	p.A149T		NM_207410	NP_997293	Q6UXV0	GFRAL_HUMAN	GDNF family receptor alpha like precursor	149	Extracellular (Potential).					integral to membrane	receptor activity			ovary(1)|breast(1)	2	Lung NSC(77;0.0875)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)			TGCACAGTTGGCCTCTTACCT	0.453													43	177					0	0	0.002522	0	0	
BMP5	653	broad.mit.edu	37	6	55623844	55623844	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:55623844C>T	uc003pcq.2	-	6	1886	c.1174G>A	c.(1174-1176)GCC>ACC	p.A392T	BMP5_uc011dxf.1_Intron	NM_021073	NP_066551	P22003	BMP5_HUMAN	bone morphogenetic protein 5 preproprotein	392					cartilage development|cell differentiation|growth|ossification	extracellular space	BMP receptor binding|cytokine activity|growth factor activity			ovary(2)	2	Lung NSC(77;0.0462)		LUSC - Lung squamous cell carcinoma(124;0.181)			TTCATATGGGCGTTAAGTGGA	0.333													19	127					0	0	0.001882	0	0	
DST	667	broad.mit.edu	37	6	56323854	56323854	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:56323854C>T	uc003pdf.2	-	97	17005	c.16977G>A	c.(16975-16977)ACG>ACA	p.T5659T	DST_uc003pcz.3_Silent_p.T5481T|DST_uc011dxj.1_Silent_p.T5510T|DST_uc011dxk.1_Silent_p.T5521T|DST_uc003pcy.3_Silent_p.T5155T|DST_uc003pcv.3_Silent_p.T277T|DST_uc003pcw.3_Silent_p.T238T|DST_uc003pcx.3_Silent_p.T201T	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	7554					cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			TCCTCTGGGGCGTGGGGATTT	0.502													13	58					0	0	0.001855	0	0	
DST	667	broad.mit.edu	37	6	56392496	56392496	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:56392496G>A	uc003pdf.2	-	62	11388	c.11360C>T	c.(11359-11361)GCC>GTC	p.A3787V	DST_uc003pcz.3_Missense_Mutation_p.A3609V|DST_uc011dxj.1_Missense_Mutation_p.A3638V|DST_uc011dxk.1_Missense_Mutation_p.A3649V|DST_uc003pcy.3_Missense_Mutation_p.A3283V	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	5695					cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			TGCTTTAATGGCTTCCAATTT	0.413													4	39					0	0	0.009096	0	0	
DST	667	broad.mit.edu	37	6	56464943	56464943	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:56464943C>T	uc003pdf.2	-	39	5289	c.5261G>A	c.(5260-5262)CGC>CAC	p.R1754H	DST_uc003pcz.3_Missense_Mutation_p.R1576H|DST_uc011dxj.1_Missense_Mutation_p.R1605H|DST_uc011dxk.1_Missense_Mutation_p.R1616H|DST_uc003pcy.3_Missense_Mutation_p.R1250H|DST_uc010kaa.1_5'Flank	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	3662					cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			ACCAATTAGGCGGTTTTCAGT	0.403													19	84					0	0	0.010504	0	0	
DST	667	broad.mit.edu	37	6	56499320	56499320	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:56499320A>G	uc003pdf.2	-	25	3363	c.3335T>C	c.(3334-3336)GTC>GCC	p.V1112A	DST_uc003pcz.3_Missense_Mutation_p.V934A|DST_uc011dxj.1_Missense_Mutation_p.V963A|DST_uc011dxk.1_Missense_Mutation_p.V974A|DST_uc003pcy.3_Missense_Mutation_p.V608A|DST_uc003pdb.2_Missense_Mutation_p.V608A|DST_uc003pdc.3_Missense_Mutation_p.V608A|DST_uc003pdd.3_Missense_Mutation_p.V608A	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	934	SH3.				cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			CACAGATGGGACCATAGCCTC	0.428													22	60					0	0	0.002299	0	0	
BEND6	221336	broad.mit.edu	37	6	56880071	56880071	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:56880071A>G	uc010kab.2	+	4	1025	c.439A>G	c.(439-441)ACA>GCA	p.T147A	BEND6_uc003pdi.3_Missense_Mutation_p.T49A	NM_152731	NP_689944	Q5SZJ8	BEND6_HUMAN	BEN domain containing 6	147											0						ATTTGCCTCAACATGCAGTAA	0.478													20	140					0	0	0.002299	0	0	
KIAA1586	57691	broad.mit.edu	37	6	56917800	56917800	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:56917800G>A	uc003pdj.2	+	4	673	c.503G>A	c.(502-504)CGG>CAG	p.R168Q	KIAA1586_uc011dxm.1_Missense_Mutation_p.R141Q	NM_020931	NP_065982	Q9HCI6	K1586_HUMAN	hypothetical protein LOC57691	168							nucleic acid binding				0	Lung NSC(77;0.0969)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			TCAGCAGTTCGGCATTTGGGA	0.363													17	107					0	0	0.006122	0	0	
KIAA1586	57691	broad.mit.edu	37	6	56918150	56918150	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:56918150C>T	uc003pdj.2	+	4	1023	c.853C>T	c.(853-855)CGT>TGT	p.R285C	KIAA1586_uc011dxm.1_Missense_Mutation_p.R258C	NM_020931	NP_065982	Q9HCI6	K1586_HUMAN	hypothetical protein LOC57691	285							nucleic acid binding				0	Lung NSC(77;0.0969)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			TTTAAATACACGTTACAGTGC	0.299													8	39					0	0	0.003080	0	0	
PTP4A1	7803	broad.mit.edu	37	6	64286802	64286802	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:64286802G>A	uc003pek.2	+	4	1003	c.17G>A	c.(16-18)CGC>CAC	p.R6H	PTP4A1_uc003pel.2_Missense_Mutation_p.R6H	NM_003463	NP_003454	Q93096	TP4A1_HUMAN	protein tyrosine phosphatase type IVA, member 1	6					cell cycle|multicellular organismal development	early endosome|endoplasmic reticulum|internal side of plasma membrane|spindle	protein binding|protein tyrosine phosphatase activity				0	all_cancers(3;0.071)|all_epithelial(2;0.0146)|Lung NSC(77;0.175)		Epithelial(2;0.0365)|LUSC - Lung squamous cell carcinoma(74;0.0644)|all cancers(2;0.112)|Lung(124;0.13)			CGAATGAACCGCCCAGCTCCT	0.328													11	53					0	0	0.003163	0	0	
EYS	346007	broad.mit.edu	37	6	66200576	66200576	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:66200576C>A	uc011dxu.1	-	5	1311	c.773G>T	c.(772-774)GGC>GTC	p.G258V	EYS_uc003peq.2_Missense_Mutation_p.G258V|EYS_uc003per.1_Missense_Mutation_p.G258V|EYS_uc010kaj.1_RNA	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1	258	EGF-like 3.				response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						TTGACACTGGCCAATTATTTC	0.303													12	33					0.00010058	0.000105469	0.001368	1	0	
BAI3	577	broad.mit.edu	37	6	69665995	69665995	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:69665995G>A	uc003pev.3	+	7	1723	c.1275G>A	c.(1273-1275)CGG>CGA	p.R425R	BAI3_uc010kak.2_Silent_p.R425R	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	425	TSP type-1 3.|Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				AGAGAAGCCGGCAGTGCACTG	0.542													7	28					0	0	0.000978	0	0	
BAI3	577	broad.mit.edu	37	6	69703826	69703826	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:69703826G>T	uc003pev.3	+	11	2349	c.1901G>T	c.(1900-1902)AGT>ATT	p.S634I	BAI3_uc010kak.2_Missense_Mutation_p.S634I	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	634	Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				AAAAGGGCAAGTTACATCCCT	0.443													10	103					3.07112e-06	3.25042e-06	0.000978	1	0	
BAI3	577	broad.mit.edu	37	6	69758103	69758103	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:69758103G>T	uc003pev.3	+	14	2582	c.2134G>T	c.(2134-2136)GCC>TCC	p.A712S	BAI3_uc010kak.2_Missense_Mutation_p.A712S	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	712	Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				GCTTCCTGCAGCCTCTGTTCT	0.353													20	39					3.99206e-14	4.33587e-14	0.007413	1	0	
BAI3	577	broad.mit.edu	37	6	70098714	70098714	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:70098714A>G	uc003pev.3	+	32	4948	c.4500A>G	c.(4498-4500)CCA>CCG	p.P1500P	BAI3_uc010kak.2_Silent_p.P1500P|BAI3_uc011dxx.1_Silent_p.P706P	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	1500	Cytoplasmic (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				AACTGAGGCCAGCAGAGTGGG	0.428													9	67					0	0	0.008291	0	0	
COL19A1	1310	broad.mit.edu	37	6	70639416	70639416	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:70639416C>T	uc003pfc.1	+	6	607	c.490C>T	c.(490-492)CGT>TGT	p.R164C	COL19A1_uc010kam.1_Missense_Mutation_p.R60C	NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	164	TSP N-terminal.				cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4						TCGAGAACTCCGTCCTTTGTT	0.393													9	62					0	0	0.006214	0	0	
COL19A1	1310	broad.mit.edu	37	6	70639518	70639518	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:70639518G>A	uc003pfc.1	+	6	709	c.592G>A	c.(592-594)GAT>AAT	p.D198N	COL19A1_uc010kam.1_Missense_Mutation_p.D94N	NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	198	TSP N-terminal.				cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4						GAGGCAGACTGATGAAAAGGA	0.423													9	116					0	0	0.004482	0	0	
COL9A1	1297	broad.mit.edu	37	6	71003937	71003937	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:71003937C>T	uc003pfg.3	-	5	788	c.629G>A	c.(628-630)GGC>GAC	p.G210D		NM_001851	NP_001842	P20849	CO9A1_HUMAN	alpha 1 type IX collagen isoform 1 precursor	210	Nonhelical region (NC4).|TSP N-terminal.				axon guidance|cell adhesion|organ morphogenesis	collagen type IX	metal ion binding			ovary(4)	4						GTCAATTGGGCCTCTTGGCTT	0.418													44	131					0	0	0.003214	0	0	
SMAP1	60682	broad.mit.edu	37	6	71442157	71442157	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:71442157T>C	uc003pfr.2	+	2	443	c.195T>C	c.(193-195)GTT>GTC	p.V65V	SMAP1_uc011dxy.1_RNA|SMAP1_uc003pfs.2_Silent_p.V65V|SMAP1_uc010kao.2_Silent_p.V65V|SMAP1_uc010kap.2_Silent_p.V55V	NM_001044305	NP_001037770	Q8IYB5	SMAP1_HUMAN	stromal membrane-associated GTPase-activating	65	Arf-GAP.				regulation of ARF GTPase activity	plasma membrane	ARF GTPase activator activity|zinc ion binding				0						ATCTTGGGGTTCATATATCCA	0.363													14	53					0	0	0.003163	0	0	
RIMS1	22999	broad.mit.edu	37	6	73016981	73016981	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:73016981C>T	uc003pga.2	+	27	3948	c.3871C>T	c.(3871-3873)CGA>TGA	p.R1291*	RIMS1_uc011dyb.1_Nonsense_Mutation_p.R688*|RIMS1_uc003pgc.2_Nonsense_Mutation_p.R740*|RIMS1_uc010kaq.2_Nonsense_Mutation_p.R611*|RIMS1_uc011dyc.1_Intron|RIMS1_uc010kar.2_Intron|RIMS1_uc011dyd.1_Intron|RIMS1_uc003pgf.2_Nonsense_Mutation_p.R300*|RIMS1_uc003pgg.2_Intron|RIMS1_uc003pgi.2_Intron|RIMS1_uc003pgh.2_Intron|RIMS1_uc003pgd.2_Nonsense_Mutation_p.R357*|RIMS1_uc003pge.2_Nonsense_Mutation_p.R331*|RIMS1_uc011dye.1_Nonsense_Mutation_p.R97*|RIMS1_uc011dyf.1_Intron	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	1291					calcium ion-dependent exocytosis|cellular membrane fusion|glutamate secretion|intracellular protein transport|protein complex assembly|regulated secretory pathway|response to stimulus|synaptic vesicle exocytosis|visual perception	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(7)|pancreas(2)|breast(1)	10		all_epithelial(107;0.179)|all_hematologic(105;0.212)				AGTGGAGGAGCGAACAAGACA	0.383													7	40					0	0	0.004482	0	0	
KCNQ5	56479	broad.mit.edu	37	6	73787158	73787158	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:73787158C>T	uc003pgk.2	+	4	1077	c.730C>T	c.(730-732)CGC>TGC	p.R244C	KCNQ5_uc003pgj.3_Missense_Mutation_p.R244C|KCNQ5_uc011dyh.1_Missense_Mutation_p.R244C|KCNQ5_uc011dyi.1_Missense_Mutation_p.R244C|KCNQ5_uc010kat.2_Missense_Mutation_p.R244C|KCNQ5_uc011dyj.1_Missense_Mutation_p.R244C|KCNQ5_uc011dyk.1_Missense_Mutation_p.R3C	NM_019842	NP_062816	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like	244	Helical; Voltage-sensor; Name=Segment S4; (Potential).		R -> C (in a colorectal cancer sample; somatic mutation).		protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity	p.R244C(1)		ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)		CCGCATGGTGCGCATGGACCG	0.438													13	31					0	0	0.002450	0	0	
KCNQ5	56479	broad.mit.edu	37	6	73879485	73879485	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:73879485C>T	uc003pgk.2	+	11	1832	c.1485C>T	c.(1483-1485)GGC>GGT	p.G495G	KCNQ5_uc011dyh.1_Silent_p.G514G|KCNQ5_uc011dyi.1_Silent_p.G505G|KCNQ5_uc010kat.2_Silent_p.G486G|KCNQ5_uc011dyj.1_Intron|KCNQ5_uc011dyk.1_Silent_p.G245G	NM_019842	NP_062816	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like	495					protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)		CAGCCCTTGGCACTGATGATG	0.438													22	85					0	0	0.002299	0	0	
COL12A1	1303	broad.mit.edu	37	6	75839850	75839850	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:75839850C>A	uc003phs.2	-	37	6333	c.6167G>T	c.(6166-6168)AGG>ATG	p.R2056M	COL12A1_uc003pht.2_Missense_Mutation_p.R892M	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	2056	Fibronectin type-III 16.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						ATAGATGATCCTGTACTGCTG	0.448													14	94					3.27435e-08	3.49742e-08	0.002450	1	0	
FILIP1	27145	broad.mit.edu	37	6	76023157	76023157	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:76023157A>G	uc003pia.2	-	5	2764	c.2391T>C	c.(2389-2391)GAT>GAC	p.D797D	FILIP1_uc003phy.1_Silent_p.D797D|FILIP1_uc003phz.2_Silent_p.D698D|FILIP1_uc010kbe.2_Silent_p.D800D|FILIP1_uc003pib.1_Silent_p.D549D	NM_015687	NP_056502	Q7Z7B0	FLIP1_HUMAN	filamin A interacting protein 1	797										skin(3)|ovary(1)	4						TCACAGGAACATCCACCATTC	0.507													33	124					0	0	0.004878	0	0	
PHIP	55023	broad.mit.edu	37	6	79668246	79668246	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:79668246C>T	uc003pir.2	-	32	3954	c.3728G>A	c.(3727-3729)AGC>AAC	p.S1243N	PHIP_uc003piq.2_Missense_Mutation_p.S267N|PHIP_uc011dyp.1_Missense_Mutation_p.S1242N|PHIP_uc003pio.3_Missense_Mutation_p.S129N	NM_017934	NP_060404	Q8WWQ0	PHIP_HUMAN	pleckstrin homology domain interacting protein	1243	Bromo 1.				insulin receptor signaling pathway|negative regulation of apoptosis|positive regulation of cell proliferation|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of mitosis	nucleus	insulin receptor binding			large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	6		all_cancers(76;0.00125)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.219)		BRCA - Breast invasive adenocarcinoma(397;0.231)		CACAATAGGGCTTCCAGGCTC	0.289													16	57					0	0	0.006122	0	0	
PHIP	55023	broad.mit.edu	37	6	79695140	79695140	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:79695140G>A	uc003pir.2	-	22	2692	c.2466C>T	c.(2464-2466)GGC>GGT	p.G822G	PHIP_uc003piq.2_5'Flank|PHIP_uc011dyp.1_Silent_p.G821G	NM_017934	NP_060404	Q8WWQ0	PHIP_HUMAN	pleckstrin homology domain interacting protein	822					insulin receptor signaling pathway|negative regulation of apoptosis|positive regulation of cell proliferation|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of mitosis	nucleus	insulin receptor binding			large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	6		all_cancers(76;0.00125)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.219)		BRCA - Breast invasive adenocarcinoma(397;0.231)		CAACTACTTCGCCTTCCTAAG	0.323													24	104					0	0	0.006320	0	0	
PHIP	55023	broad.mit.edu	37	6	79708078	79708078	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:79708078T>G	uc003pir.2	-	18	2136	c.1910A>C	c.(1909-1911)AAC>ACC	p.N637T	PHIP_uc011dyp.1_Missense_Mutation_p.N637T	NM_017934	NP_060404	Q8WWQ0	PHIP_HUMAN	pleckstrin homology domain interacting protein	637					insulin receptor signaling pathway|negative regulation of apoptosis|positive regulation of cell proliferation|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of mitosis	nucleus	insulin receptor binding			large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	6		all_cancers(76;0.00125)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.219)		BRCA - Breast invasive adenocarcinoma(397;0.231)		GATCTCCTGGTTTGCTTGCTG	0.398													15	58					0	0	0.003163	0	0	
ELOVL4	6785	broad.mit.edu	37	6	80635973	80635973	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:80635973G>A	uc003pja.3	-	2	545	c.226C>T	c.(226-228)CGT>TGT	p.R76C	ELOVL4_uc011dyt.1_Intron	NM_022726	NP_073563	Q9GZR5	ELOV4_HUMAN	elongation of very long chain fatty acids-like	76					fatty acid elongation, saturated fatty acid|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process|very long-chain fatty acid biosynthetic process	integral to endoplasmic reticulum membrane	G-protein coupled photoreceptor activity|protein binding|transferase activity, transferring acyl groups other than amino-acyl groups			ovary(1)|skin(1)	2		all_cancers(76;1.83e-05)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.011)		BRCA - Breast invasive adenocarcinoma(397;0.0168)	Alpha-Linolenic Acid(DB00132)	AGCACTAGACGCATCTGAAAA	0.388													13	61					0	0	0.001368	0	0	
IBTK	25998	broad.mit.edu	37	6	82933304	82933304	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:82933304A>G	uc003pjl.1	-	8	1504	c.977T>C	c.(976-978)GTA>GCA	p.V326A	IBTK_uc011dyv.1_Missense_Mutation_p.V326A|IBTK_uc011dyw.1_Missense_Mutation_p.V326A|IBTK_uc010kbi.1_Missense_Mutation_p.V20A|IBTK_uc003pjm.2_Missense_Mutation_p.V326A	NM_015525	NP_056340	Q9P2D0	IBTK_HUMAN	inhibitor of Bruton's tyrosine kinase	326					negative regulation of protein phosphorylation|release of sequestered calcium ion into cytosol	cytoplasm|membrane|nucleus	protein kinase binding|protein tyrosine kinase inhibitor activity			ovary(2)|central_nervous_system(2)	4		all_cancers(76;3.38e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.0037)		BRCA - Breast invasive adenocarcinoma(397;0.0901)		AGGAGCAGTTACACACTTTTC	0.388													8	62					0	0	0.008291	0	0	
DOPEY1	23033	broad.mit.edu	37	6	83835317	83835317	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:83835317A>T	uc003pjs.1	+	15	1844	c.1584A>T	c.(1582-1584)GAA>GAT	p.E528D	DOPEY1_uc011dyy.1_Missense_Mutation_p.E519D|DOPEY1_uc010kbl.1_Missense_Mutation_p.E519D	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	528					protein transport					ovary(2)|breast(1)|central_nervous_system(1)	4		all_cancers(76;2.29e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00203)		BRCA - Breast invasive adenocarcinoma(397;0.053)		ACTTATCTGAACTCACAGATT	0.468													14	79					0	0	0.004990	0	0	
DOPEY1	23033	broad.mit.edu	37	6	83845508	83845508	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:83845508T>C	uc003pjs.1	+	20	3301	c.3041T>C	c.(3040-3042)GTA>GCA	p.V1014A	DOPEY1_uc011dyy.1_Missense_Mutation_p.V1005A|DOPEY1_uc010kbl.1_Missense_Mutation_p.V1005A|DOPEY1_uc003pjt.2_5'Flank	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	1014					protein transport					ovary(2)|breast(1)|central_nervous_system(1)	4		all_cancers(76;2.29e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00203)		BRCA - Breast invasive adenocarcinoma(397;0.053)		GTACAGCGTGTACAAGCAGAA	0.428													10	145					0	0	0.000978	0	0	
DOPEY1	23033	broad.mit.edu	37	6	83848526	83848526	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:83848526C>T	uc003pjs.1	+	21	5025	c.4765C>T	c.(4765-4767)CTG>TTG	p.L1589L	DOPEY1_uc011dyy.1_Silent_p.L1580L|DOPEY1_uc010kbl.1_Silent_p.L1580L|DOPEY1_uc003pjt.2_RNA	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	1589					protein transport					ovary(2)|breast(1)|central_nervous_system(1)	4		all_cancers(76;2.29e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00203)		BRCA - Breast invasive adenocarcinoma(397;0.053)		GCTTCAGAGGCTGATTGTTCT	0.408													25	93					0	0	0.004656	0	0	
DOPEY1	23033	broad.mit.edu	37	6	83863283	83863283	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:83863283T>C	uc003pjs.1	+	31	6443	c.6183T>C	c.(6181-6183)GTT>GTC	p.V2061V	DOPEY1_uc011dyy.1_Silent_p.V2052V|DOPEY1_uc010kbl.1_Silent_p.V2052V|DOPEY1_uc003pjt.2_RNA	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	2061					protein transport					ovary(2)|breast(1)|central_nervous_system(1)	4		all_cancers(76;2.29e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00203)		BRCA - Breast invasive adenocarcinoma(397;0.053)		AGGAGCGGGTTATTCCTTTAC	0.303													9	104					0	0	0.008291	0	0	
DOPEY1	23033	broad.mit.edu	37	6	83877659	83877659	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:83877659C>T	uc003pjs.1	+	39	7431	c.7171C>T	c.(7171-7173)CGC>TGC	p.R2391C	DOPEY1_uc011dyy.1_Missense_Mutation_p.R2402C|DOPEY1_uc010kbl.1_Missense_Mutation_p.R2382C|DOPEY1_uc003pjt.2_RNA|uc003pju.1_5'Flank	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	2391					protein transport					ovary(2)|breast(1)|central_nervous_system(1)	4		all_cancers(76;2.29e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00203)		BRCA - Breast invasive adenocarcinoma(397;0.053)		CTGCACCGTGCGCAGTATGGA	0.512													6	43					0	0	0.001168	0	0	
PGM3	5238	broad.mit.edu	37	6	83880190	83880190	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:83880190T>C	uc003pjv.2	-	12	1413	c.1373A>G	c.(1372-1374)GAC>GGC	p.D458G	PGM3_uc003pjw.2_Missense_Mutation_p.D377G|PGM3_uc011dyz.1_Missense_Mutation_p.D486G|DOPEY1_uc003pjt.2_RNA|uc003pju.1_5'Flank	NM_015599	NP_056414	O95394	AGM1_HUMAN	phosphoglucomutase 3	458					dolichol-linked oligosaccharide biosynthetic process|embryo development ending in birth or egg hatching|glucose 1-phosphate metabolic process|hemopoiesis|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol	magnesium ion binding|phosphoacetylglucosamine mutase activity|phosphoglucomutase activity				0		all_cancers(76;0.000504)|Acute lymphoblastic leukemia(125;3.85e-06)|all_hematologic(105;0.0017)|all_epithelial(107;0.068)		BRCA - Breast invasive adenocarcinoma(397;0.0478)		AACTCTCCTGTCTGCAACCTA	0.408													4	96					0	0	0.009096	0	0	
PGM3	5238	broad.mit.edu	37	6	83900638	83900638	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:83900638C>T	uc003pjv.2	-	2	134	c.94G>A	c.(94-96)GCA>ACA	p.A32T	PGM3_uc003pjw.2_Intron|PGM3_uc011dyz.1_Missense_Mutation_p.A60T|RWDD2A_uc003pjx.3_5'Flank|RWDD2A_uc011dza.1_5'Flank	NM_015599	NP_056414	O95394	AGM1_HUMAN	phosphoglucomutase 3	32					dolichol-linked oligosaccharide biosynthetic process|embryo development ending in birth or egg hatching|glucose 1-phosphate metabolic process|hemopoiesis|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol	magnesium ion binding|phosphoacetylglucosamine mutase activity|phosphoglucomutase activity				0		all_cancers(76;0.000504)|Acute lymphoblastic leukemia(125;3.85e-06)|all_hematologic(105;0.0017)|all_epithelial(107;0.068)		BRCA - Breast invasive adenocarcinoma(397;0.0478)		AGATGTTCTGCCTTCGTTCGA	0.438													12	92					0	0	0.003163	0	0	
NT5E	4907	broad.mit.edu	37	6	86199295	86199295	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:86199295G>A	uc003pko.3	+	6	1744	c.1188G>A	c.(1186-1188)TCG>TCA	p.S396S	NT5E_uc010kbr.2_Silent_p.S396S	NM_002526	NP_002517	P21589	5NTD_HUMAN	5' nucleotidase, ecto precursor	396					DNA metabolic process|purine base metabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	anchored to membrane|cytoplasm|membrane fraction|plasma membrane	5'-nucleotidase activity|nucleotide binding			ovary(3)|central_nervous_system(1)	4		all_cancers(76;0.000215)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0427)		BRCA - Breast invasive adenocarcinoma(108;0.0417)	Pentoxifylline(DB00806)	GTATCCGGTCGCCCATTGATG	0.473													11	33					0	0	0.001368	0	0	
SYNCRIP	10492	broad.mit.edu	37	6	86324613	86324613	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:86324613C>T	uc003pla.2	-	11	2274	c.1733G>A	c.(1732-1734)CGC>CAC	p.R578H	SYNCRIP_uc003pku.2_Intron|SYNCRIP_uc003pkw.2_Intron|SYNCRIP_uc003pky.2_Intron|SYNCRIP_uc003pkv.2_Intron|SYNCRIP_uc003pkx.2_Intron|SYNCRIP_uc003pkz.2_Missense_Mutation_p.R543H	NM_006372	NP_006363	O60506	HNRPQ_HUMAN	synaptotagmin binding, cytoplasmic RNA	578	Bipartite nuclear localization signal (Potential).				CRD-mediated mRNA stabilization|interspecies interaction between organisms	catalytic step 2 spliceosome|CRD-mediated mRNA stability complex|endoplasmic reticulum|histone pre-mRNA 3'end processing complex|microsome|nucleoplasm	nucleotide binding|protein binding			ovary(2)	2		all_cancers(76;0.000137)|Acute lymphoblastic leukemia(125;3.66e-08)|Prostate(29;8.2e-07)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0297)		BRCA - Breast invasive adenocarcinoma(108;0.0389)		ATTGGTCTGGCGCCGCTTGGA	0.552													19	103					0	0	0.002299	0	0	
HTR1E	3354	broad.mit.edu	37	6	87725357	87725357	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:87725357A>G	uc003pli.2	+	2	1008	c.305A>G	c.(304-306)GAC>GGC	p.D102G		NM_000865	NP_000856	P28566	5HT1E_HUMAN	5-hydroxytryptamine (serotonin) receptor 1E	102	Helical; Name=3; (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane	protein binding|serotonin binding|serotonin receptor activity			ovary(2)|skin(1)	3		all_cancers(76;7.11e-06)|Acute lymphoblastic leukemia(125;1.2e-09)|Prostate(29;3.51e-09)|all_hematologic(105;7.43e-06)|all_epithelial(107;0.00819)		BRCA - Breast invasive adenocarcinoma(108;0.055)	Eletriptan(DB00216)	CTGAGTGTGGACATGACCTGC	0.557													12	60					0	0	0.004007	0	0	
HTR1E	3354	broad.mit.edu	37	6	87725457	87725457	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:87725457G>A	uc003pli.2	+	2	1108	c.405G>A	c.(403-405)ACG>ACA	p.T135T		NM_000865	NP_000856	P28566	5HT1E_HUMAN	5-hydroxytryptamine (serotonin) receptor 1E	135	Cytoplasmic (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane	protein binding|serotonin binding|serotonin receptor activity			ovary(2)|skin(1)	3		all_cancers(76;7.11e-06)|Acute lymphoblastic leukemia(125;1.2e-09)|Prostate(29;3.51e-09)|all_hematologic(105;7.43e-06)|all_epithelial(107;0.00819)		BRCA - Breast invasive adenocarcinoma(108;0.055)	Eletriptan(DB00216)	GGAAGAGGACGGCCAAGAGGG	0.577													9	65					0	0	0.000978	0	0	
C6orf162	57150	broad.mit.edu	37	6	88049953	88049953	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:88049953G>A	uc003plp.1	+	4	344	c.255G>A	c.(253-255)GGG>GGA	p.G85G	C6orf164_uc003plr.2_Intron|C6orf162_uc003plq.1_Silent_p.G85G	NM_001042493	NP_001035958	Q96KF7	CF162_HUMAN	hypothetical protein LOC57150	85						integral to membrane					0		all_cancers(76;3.81e-09)|Prostate(29;1.34e-10)|Acute lymphoblastic leukemia(125;2.15e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;5.3e-05)		BRCA - Breast invasive adenocarcinoma(108;0.0164)		ATAGTGAGGGGCACAGTTATA	0.388													23	82					0	0	0.007291	0	0	
C6orf165	154313	broad.mit.edu	37	6	88128088	88128088	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:88128088C>T	uc003plv.2	+	7	886	c.794C>T	c.(793-795)GCG>GTG	p.A265V	C6orf165_uc003plw.2_Missense_Mutation_p.A77V|C6orf165_uc010kbv.1_RNA|C6orf165_uc003plu.1_Missense_Mutation_p.A265V	NM_001031743	NP_001026913	Q8IYR0	CF165_HUMAN	hypothetical protein LOC154313 isoform 1	265										central_nervous_system(1)	1		all_cancers(76;3.93e-06)|Acute lymphoblastic leukemia(125;3.55e-10)|Prostate(29;3.51e-09)|all_hematologic(105;3.29e-06)|all_epithelial(107;0.00575)		BRCA - Breast invasive adenocarcinoma(108;0.0419)		TTAAAAGAAGCGCTATATAAT	0.418													20	100					0	0	0.005443	0	0	
ORC3L	23595	broad.mit.edu	37	6	88321908	88321908	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:88321908G>A	uc003pmh.2	+	8	859	c.815G>A	c.(814-816)TGC>TAC	p.C272Y	ORC3L_uc011dzl.1_Missense_Mutation_p.C272Y|ORC3L_uc011dzm.1_Missense_Mutation_p.C272Y|ORC3L_uc011dzn.1_RNA|ORC3L_uc003pmg.2_Missense_Mutation_p.C272Y|ORC3L_uc003pmi.2_Missense_Mutation_p.C272Y|ORC3L_uc011dzo.1_Missense_Mutation_p.C129Y|ORC3L_uc011dzp.1_Missense_Mutation_p.C129Y	NM_012381	NP_036513	Q9UBD5	ORC3_HUMAN	origin recognition complex, subunit 3 isoform 2	272					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	nuclear origin of replication recognition complex|nucleoplasm	DNA replication origin binding|protein binding				0		all_cancers(76;9.05e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;5.29e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.000114)		BRCA - Breast invasive adenocarcinoma(108;0.0469)		TCTCTATTGTGCATAGAACTG	0.373													14	68					0	0	0.003163	0	0	
ORC3L	23595	broad.mit.edu	37	6	88372743	88372743	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:88372743A>T	uc003pmh.2	+	17	1758	c.1714A>T	c.(1714-1716)ACA>TCA	p.T572S	ORC3L_uc011dzn.1_RNA|ORC3L_uc003pmg.2_Missense_Mutation_p.T573S|ORC3L_uc003pmi.2_Missense_Mutation_p.T535S|ORC3L_uc011dzo.1_Missense_Mutation_p.T429S|ORC3L_uc011dzp.1_Missense_Mutation_p.T429S|ORC3L_uc003pmj.1_5'Flank	NM_012381	NP_036513	Q9UBD5	ORC3_HUMAN	origin recognition complex, subunit 3 isoform 2	572					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	nuclear origin of replication recognition complex|nucleoplasm	DNA replication origin binding|protein binding				0		all_cancers(76;9.05e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;5.29e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.000114)		BRCA - Breast invasive adenocarcinoma(108;0.0469)		GCCTCCTGAGACACAGCCTCT	0.428													5	64					0	0	0.001168	0	0	
ORC3L	23595	broad.mit.edu	37	6	88372813	88372813	+	Missense_Mutation	SNP	C	T	T	rs61747273	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:88372813C>T	uc003pmh.2	+	17	1828	c.1784C>T	c.(1783-1785)CCG>CTG	p.P595L	ORC3L_uc011dzn.1_RNA|ORC3L_uc003pmg.2_Missense_Mutation_p.P596L|ORC3L_uc003pmi.2_Missense_Mutation_p.P558L|ORC3L_uc011dzo.1_Missense_Mutation_p.P452L|ORC3L_uc011dzp.1_Missense_Mutation_p.P452L|ORC3L_uc003pmj.1_5'Flank	NM_012381	NP_036513	Q9UBD5	ORC3_HUMAN	origin recognition complex, subunit 3 isoform 2	595					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	nuclear origin of replication recognition complex|nucleoplasm	DNA replication origin binding|protein binding				0		all_cancers(76;9.05e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;5.29e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.000114)		BRCA - Breast invasive adenocarcinoma(108;0.0469)		AATGCTGCTCCGCGAATTGCC	0.463													12	77					0	0	0.000978	0	0	
CNR1	1268	broad.mit.edu	37	6	88854116	88854116	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:88854116G>A	uc011dzq.1	-	2	4441	c.878C>T	c.(877-879)GCG>GTG	p.A293V	CNR1_uc010kbz.2_Missense_Mutation_p.A293V|CNR1_uc011dzr.1_Missense_Mutation_p.A293V|CNR1_uc011dzs.1_Missense_Mutation_p.A293V|CNR1_uc003pmq.3_Missense_Mutation_p.A293V|CNR1_uc011dzt.1_Missense_Mutation_p.A293V|CNR1_uc010kca.2_Missense_Mutation_p.A260V	NM_001160260	NP_001153732	P21554	CNR1_HUMAN	cannabinoid receptor 1 isoform a	293	Helical; Name=5; (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger	integral to plasma membrane	cannabinoid receptor activity|protein binding			skin(2)	2		all_cancers(76;8.24e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;4.11e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.00011)		BRCA - Breast invasive adenocarcinoma(108;0.15)	Marinol(DB00470)|Nabilone(DB00486)|Rimonabant(DB06155)	ATACATGTACGCATACACGAT	0.507													8	44					0	0	0.004482	0	0	
CNR1	1268	broad.mit.edu	37	6	88854156	88854156	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:88854156T>A	uc011dzq.1	-	2	4401	c.838A>T	c.(838-840)ATC>TTC	p.I280F	CNR1_uc010kbz.2_Missense_Mutation_p.I280F|CNR1_uc011dzr.1_Missense_Mutation_p.I280F|CNR1_uc011dzs.1_Missense_Mutation_p.I280F|CNR1_uc003pmq.3_Missense_Mutation_p.I280F|CNR1_uc011dzt.1_Missense_Mutation_p.I280F|CNR1_uc010kca.2_Missense_Mutation_p.I247F	NM_001160260	NP_001153732	P21554	CNR1_HUMAN	cannabinoid receptor 1 isoform a	280	Helical; Name=5; (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger	integral to plasma membrane	cannabinoid receptor activity|protein binding			skin(2)	2		all_cancers(76;8.24e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;4.11e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.00011)		BRCA - Breast invasive adenocarcinoma(108;0.15)	Marinol(DB00470)|Nabilone(DB00486)|Rimonabant(DB06155)	GTGACCCCGATCCAGAACATC	0.527													7	48					0	0	0.004482	0	0	
PM20D2	135293	broad.mit.edu	37	6	89868083	89868083	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:89868083C>A	uc003pmz.2	+	5	1047	c.952C>A	c.(952-954)CTT>ATT	p.L318I		NM_001010853	NP_001010853	Q8IYS1	P20D2_HUMAN	aminoacylase 1-like 2	318							hydrolase activity				0		all_cancers(76;9.47e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.45e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;0.000114)		BRCA - Breast invasive adenocarcinoma(108;0.00813)		TTACAATGTTCTTCCCAATAA	0.313													28	85					3.73148e-12	4.03773e-12	0.007291	1	0	
MDN1	23195	broad.mit.edu	37	6	90363931	90363931	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:90363931C>T	uc003pnn.1	-	93	15729	c.15613G>A	c.(15613-15615)GAG>AAG	p.E5205K		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	5205					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		TTCAGCTGCTCCACGTCTGCT	0.532													24	112					0	0	0.004656	0	0	
MDN1	23195	broad.mit.edu	37	6	90365627	90365627	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:90365627G>A	uc003pnn.1	-	92	15462	c.15346C>T	c.(15346-15348)CGT>TGT	p.R5116C		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	5116					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		TTGTGCACACGCTCATTGTGA	0.473													9	33					0	0	0.004482	0	0	
MDN1	23195	broad.mit.edu	37	6	90372631	90372631	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:90372631G>A	uc003pnn.1	-	86	14408	c.14292C>T	c.(14290-14292)GGC>GGT	p.G4764G		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	4764					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		CATTGAGATCGCCCATGTGTT	0.403													30	144					0	0	0.003755	0	0	
MDN1	23195	broad.mit.edu	37	6	90420485	90420485	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:90420485A>T	uc003pnn.1	-	50	7796	c.7680T>A	c.(7678-7680)AGT>AGA	p.S2560R		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	2560					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		GAGATGCAGCACTGGCTTCCA	0.323													18	32					0	0	0.007413	0	0	
MDN1	23195	broad.mit.edu	37	6	90422950	90422950	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:90422950G>A	uc003pnn.1	-	47	7251	c.7135C>T	c.(7135-7137)CGA>TGA	p.R2379*		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	2379					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		CTCAGCCCTCGCTGCAGGTAC	0.413													38	127					0	0	0.003214	0	0	
MDN1	23195	broad.mit.edu	37	6	90433295	90433295	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:90433295G>A	uc003pnn.1	-	39	5830	c.5714C>T	c.(5713-5715)GCC>GTC	p.A1905V		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	1905					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		CAAAGTACTGGCAATGAACTC	0.333													10	40					0	0	0.000978	0	0	
MDN1	23195	broad.mit.edu	37	6	90499580	90499580	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:90499580C>T	uc003pnn.1	-	7	1265	c.1149G>A	c.(1147-1149)TGG>TGA	p.W383*	MDN1_uc003pnp.1_Nonsense_Mutation_p.W383*	NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	383					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		TGCCAGGCTGCCACACAAACT	0.483													4	28					0	0	0.000602	0	0	
CASP8AP2	9994	broad.mit.edu	37	6	90572093	90572093	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:90572093G>A	uc003pnr.2	+	7	861	c.665G>A	c.(664-666)TGC>TAC	p.C222Y	CASP8AP2_uc003pns.2_Intron|CASP8AP2_uc003pnt.2_Missense_Mutation_p.C222Y|CASP8AP2_uc011dzz.1_Missense_Mutation_p.C222Y	NM_001137667	NP_001131139	Q9UKL3	C8AP2_HUMAN	caspase 8 associated protein 2	222					cell cycle|cellular response to mechanical stimulus|induction of apoptosis via death domain receptors|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	cytoplasm|nucleus	caspase activator activity|death receptor binding|transcription corepressor activity			ovary(2)	2		all_cancers(76;3.64e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.45e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;4.69e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0953)		GAGAAACACTGCACTAATGGT	0.398													39	259					0	0	0.007835	0	0	
BACH2	60468	broad.mit.edu	37	6	90660539	90660539	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:90660539C>A	uc011eab.1	-	7	2095	c.1286G>T	c.(1285-1287)AGG>ATG	p.R429M	BACH2_uc003pnw.2_Missense_Mutation_p.R429M|BACH2_uc010kch.2_Missense_Mutation_p.R429M	NM_021813	NP_068585	Q9BYV9	BACH2_HUMAN	BTB and CNC homology 1, basic leucine zipper	429						nucleus	protein dimerization activity|sequence-specific DNA binding			ovary(3)|pancreas(1)|lung(1)|skin(1)	6		all_cancers(76;7.37e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.0063)		BRCA - Breast invasive adenocarcinoma(108;0.0799)		GATCACGCTCCTCCGGTCCAG	0.597													9	30					4.84862e-15	5.27828e-15	0.000978	1	0	
BACH2	60468	broad.mit.edu	37	6	90718450	90718450	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:90718450G>A	uc011eab.1	-	6	923	c.114C>T	c.(112-114)GAC>GAT	p.D38D	BACH2_uc003pnw.2_Silent_p.D38D|BACH2_uc010kch.2_Silent_p.D38D	NM_021813	NP_068585	Q9BYV9	BACH2_HUMAN	BTB and CNC homology 1, basic leucine zipper	38	BTB.					nucleus	protein dimerization activity|sequence-specific DNA binding	p.D38N(1)		ovary(3)|pancreas(1)|lung(1)|skin(1)	6		all_cancers(76;7.37e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.0063)		BRCA - Breast invasive adenocarcinoma(108;0.0799)		TCAAAGTCACGTCACAGAGAA	0.537													23	85					0	0	0.004656	0	0	
KIAA0776	23376	broad.mit.edu	37	6	96984150	96984150	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:96984150G>A	uc003por.2	+	8	734	c.686G>A	c.(685-687)CGC>CAC	p.R229H	KIAA0776_uc010kck.2_RNA	NM_015323	NP_056138	O94874	UFL1_HUMAN	hypothetical protein LOC23376	229	Involved in CDK5RAP3-binding.				negative regulation of NF-kappaB transcription factor activity|negative regulation of protein ubiquitination|protein ufmylation	endoplasmic reticulum|nucleus	protein binding|UFM1 conjugating enzyme activity			ovary(1)	1		all_cancers(76;5.83e-05)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.0604)|Colorectal(196;0.0721)		BRCA - Breast invasive adenocarcinoma(108;0.0934)		AATAGCGGACGCTTACGAGGC	0.408													16	124					0	0	0.008871	0	0	
KLHL32	114792	broad.mit.edu	37	6	97562260	97562260	+	Missense_Mutation	SNP	G	A	A	rs150244885		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:97562260G>A	uc010kcm.1	+	7	1701	c.1229G>A	c.(1228-1230)CGC>CAC	p.R410H	KLHL32_uc003poy.2_Missense_Mutation_p.R410H|KLHL32_uc011ead.1_Missense_Mutation_p.R374H|KLHL32_uc003poz.2_Intron|KLHL32_uc011eae.1_Missense_Mutation_p.R341H|KLHL32_uc003ppa.2_Intron	NM_052904	NP_443136	Q96NJ5	KLH32_HUMAN	kelch-like 32	410	Kelch 3.									ovary(3)|skin(1)	4		all_cancers(76;1.19e-06)|Acute lymphoblastic leukemia(125;5.83e-10)|all_hematologic(75;3.67e-07)|all_epithelial(107;0.00778)|Colorectal(196;0.122)		BRCA - Breast invasive adenocarcinoma(108;0.0558)		AATGAACTGCGCCAGGTTCTG	0.498													10	45					0	0	0.006214	0	0	
POU3F2	5454	broad.mit.edu	37	6	99283807	99283807	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:99283807G>A	uc003ppe.2	+	1	1228	c.1058G>A	c.(1057-1059)CGC>CAC	p.R353H		NM_005604	NP_005595	P20265	PO3F2_HUMAN	POU domain, class 3, transcription factor 2	353					positive regulation of cell proliferation		identical protein binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(76;1.56e-06)|Acute lymphoblastic leukemia(125;4.93e-10)|all_hematologic(75;3.55e-07)|all_epithelial(107;0.00893)|Colorectal(196;0.069)|Lung NSC(302;0.197)		BRCA - Breast invasive adenocarcinoma(108;0.0355)		GCGCAAGGGCGCAAGCGGAAA	0.597													4	54					0	0	0.009096	0	0	
POU3F2	5454	broad.mit.edu	37	6	99283841	99283841	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:99283841C>T	uc003ppe.2	+	1	1262	c.1092C>T	c.(1090-1092)AGC>AGT	p.S364S		NM_005604	NP_005595	P20265	PO3F2_HUMAN	POU domain, class 3, transcription factor 2	364	Homeobox.				positive regulation of cell proliferation		identical protein binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(76;1.56e-06)|Acute lymphoblastic leukemia(125;4.93e-10)|all_hematologic(75;3.55e-07)|all_epithelial(107;0.00893)|Colorectal(196;0.069)|Lung NSC(302;0.197)		BRCA - Breast invasive adenocarcinoma(108;0.0355)		TCGAGGTGAGCGTCAAGGGGG	0.632													7	36					0	0	0.001984	0	0	
SFRS18	25957	broad.mit.edu	37	6	99849276	99849276	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:99849276T>C	uc003ppo.3	-	12	1786	c.1558A>G	c.(1558-1560)AGC>GGC	p.S520G	SFRS18_uc003ppl.2_Missense_Mutation_p.S66G|SFRS18_uc003ppp.3_Missense_Mutation_p.S520G|SFRS18_uc011eag.1_Missense_Mutation_p.S520G	NM_032870	NP_116259	Q8TF01	PNISR_HUMAN	splicing factor, arginine/serine-rich 130	520	Ser-rich.					nuclear speck					0		all_cancers(76;1.24e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.00716)|Colorectal(196;0.0691)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0631)		ctgctattgctactggaacta	0.294													4	43					0	0	0.009096	0	0	
SFRS18	25957	broad.mit.edu	37	6	99855980	99855980	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:99855980G>A	uc003ppo.3	-	7	1069	c.841C>T	c.(841-843)CGT>TGT	p.R281C	SFRS18_uc003ppp.3_Missense_Mutation_p.R281C|SFRS18_uc011eag.1_Missense_Mutation_p.R281C|SFRS18_uc003ppr.2_Missense_Mutation_p.R281C	NM_032870	NP_116259	Q8TF01	PNISR_HUMAN	splicing factor, arginine/serine-rich 130	281						nuclear speck					0		all_cancers(76;1.24e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.00716)|Colorectal(196;0.0691)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0631)		TGAGGTAAACGAGGGCCATCC	0.373													21	80					0	0	0.002299	0	0	
SFRS18	25957	broad.mit.edu	37	6	99856111	99856111	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:99856111C>T	uc003ppo.3	-	7	938	c.710G>A	c.(709-711)CGC>CAC	p.R237H	SFRS18_uc003ppp.3_Missense_Mutation_p.R237H|SFRS18_uc011eag.1_Missense_Mutation_p.R237H|SFRS18_uc003ppr.2_Missense_Mutation_p.R237H	NM_032870	NP_116259	Q8TF01	PNISR_HUMAN	splicing factor, arginine/serine-rich 130	237	Potential.					nuclear speck					0		all_cancers(76;1.24e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.00716)|Colorectal(196;0.0691)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0631)		AAGACCTTCGCGAATCCAAGC	0.383													18	109					0	0	0.008871	0	0	
PRDM13	59336	broad.mit.edu	37	6	100062403	100062403	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:100062403G>A	uc003pqg.1	+	4	2153	c.1892G>A	c.(1891-1893)CGC>CAC	p.R631H		NM_021620	NP_067633	Q9H4Q3	PRD13_HUMAN	PR domain containing 13	631	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(76;1.64e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0128)|Colorectal(196;0.069)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0598)		ACGCCCTACCGCTGCGAGTTC	0.637													5	16					0	0	0.006214	0	0	
MCHR2	84539	broad.mit.edu	37	6	100403950	100403950	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:100403950G>T	uc003pqh.1	-	2	389	c.74C>A	c.(73-75)GCT>GAT	p.A25D	MCHR2_uc003pqi.1_Missense_Mutation_p.A25D	NM_001040179	NP_001035269	Q969V1	MCHR2_HUMAN	melanin-concentrating hormone receptor 2	25	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	8		all_cancers(76;4.87e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0309)|Colorectal(196;0.069)		BRCA - Breast invasive adenocarcinoma(108;0.0429)		AGTTTGATAAGCAAACTCTTT	0.418													12	123					3.07112e-06	3.25042e-06	0.000978	1	0	
SIM1	6492	broad.mit.edu	37	6	100897563	100897563	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:100897563C>T	uc003pqj.3	-	4	568	c.361G>A	c.(361-363)GGA>AGA	p.G121R	SIM1_uc010kcu.2_Missense_Mutation_p.G121R	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	121	PAS 1.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		ATGCTGTTTCCGGTCAGCTCT	0.572													8	24					0	0	0.004482	0	0	
ASCC3	10973	broad.mit.edu	37	6	101109778	101109778	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:101109778C>T	uc003pqk.2	-	16	2936	c.2607G>A	c.(2605-2607)ACG>ACA	p.T869T	ASCC3_uc011eai.1_Silent_p.T771T	NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	869	Helicase C-terminal 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		GTTTATCATGCGTTGTTATAA	0.408													24	130					0	0	0.004656	0	0	
ASCC3	10973	broad.mit.edu	37	6	101165958	101165958	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:101165958G>A	uc003pqk.2	-	12	2401	c.2072C>T	c.(2071-2073)GCA>GTA	p.A691V	ASCC3_uc011eai.1_Missense_Mutation_p.A593V|ASCC3_uc003pql.2_Missense_Mutation_p.A691V	NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	691					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		TACCTTATTTGCACATTTAAT	0.318													5	74					0	0	0.000602	0	0	
ASCC3	10973	broad.mit.edu	37	6	101215064	101215064	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:101215064C>T	uc003pqk.2	-	9	1882	c.1553G>A	c.(1552-1554)CGC>CAC	p.R518H	ASCC3_uc011eai.1_Missense_Mutation_p.R420H|ASCC3_uc003pql.2_Missense_Mutation_p.R518H	NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	518	Helicase ATP-binding 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		AAAATGTTGGCGAATTTCATG	0.348													13	87					0	0	0.002450	0	0	
GRIK2	2898	broad.mit.edu	37	6	101847167	101847167	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:101847167T>A	uc003pqp.3	+	1	263	c.14T>A	c.(13-15)TTC>TAC	p.F5Y	GRIK2_uc003pqn.2_Missense_Mutation_p.F5Y|GRIK2_uc003pqo.3_Missense_Mutation_p.F5Y|GRIK2_uc010kcw.2_Missense_Mutation_p.F5Y	NM_021956	NP_068775	Q13002	GRIK2_HUMAN	glutamate receptor, ionotropic, kainate 2	5					glutamate signaling pathway|induction of programmed cell death in response to chemical stimulus|neuron apoptosis|positive regulation of synaptic transmission|regulation of short-term neuronal synaptic plasticity	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|pancreas(1)|breast(1)|skin(1)	5		all_cancers(76;1.19e-07)|Acute lymphoblastic leukemia(125;6.17e-11)|all_hematologic(75;6.01e-08)|all_epithelial(87;0.0121)|Colorectal(196;0.14)		all cancers(137;0.112)|BRCA - Breast invasive adenocarcinoma(108;0.124)|GBM - Glioblastoma multiforme(226;0.206)	L-Glutamic Acid(DB00142)	AAGATTATTTTCCCGATTCTA	0.483													10	64					0	0	0.008291	0	0	
GRIK2	2898	broad.mit.edu	37	6	102074360	102074360	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:102074360T>C	uc003pqp.3	+	3	638	c.389T>C	c.(388-390)ATA>ACA	p.I130T	GRIK2_uc003pqn.2_Missense_Mutation_p.I130T|GRIK2_uc003pqo.3_Missense_Mutation_p.I130T|GRIK2_uc010kcw.2_Missense_Mutation_p.I130T	NM_021956	NP_068775	Q13002	GRIK2_HUMAN	glutamate receptor, ionotropic, kainate 2	130	Extracellular (Potential).				glutamate signaling pathway|induction of programmed cell death in response to chemical stimulus|neuron apoptosis|positive regulation of synaptic transmission|regulation of short-term neuronal synaptic plasticity	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|pancreas(1)|breast(1)|skin(1)	5		all_cancers(76;1.19e-07)|Acute lymphoblastic leukemia(125;6.17e-11)|all_hematologic(75;6.01e-08)|all_epithelial(87;0.0121)|Colorectal(196;0.14)		all cancers(137;0.112)|BRCA - Breast invasive adenocarcinoma(108;0.124)|GBM - Glioblastoma multiforme(226;0.206)	L-Glutamic Acid(DB00142)	GTTCCCCACATACAGACCCGC	0.532													16	113					0	0	0.004990	0	0	
HACE1	57531	broad.mit.edu	37	6	105244857	105244857	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:105244857C>T	uc003pqu.1	-	8	938	c.661G>A	c.(661-663)GCC>ACC	p.A221T	HACE1_uc010kcy.1_5'UTR|HACE1_uc010kcz.1_Missense_Mutation_p.A221T	NM_020771	NP_065822	Q8IYU2	HACE1_HUMAN	HECT domain and ankyrin repeat containing, E3	221	ANK 5.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	endoplasmic reticulum	ubiquitin-protein ligase activity			ovary(5)|lung(2)	7		all_cancers(87;6.89e-05)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0216)|Colorectal(196;0.202)		BRCA - Breast invasive adenocarcinoma(108;0.122)|Epithelial(106;0.204)		AGATATTTGGCTCCTCGTAAT	0.338													9	63					0	0	0.000978	0	0	
POPDC3	64208	broad.mit.edu	37	6	105609713	105609713	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:105609713C>A	uc003prb.2	-	2	474	c.72G>T	c.(70-72)GAG>GAT	p.E24D	uc003pqz.2_Intron|POPDC3_uc003pra.2_RNA	NM_022361	NP_071756	Q9HBV1	POPD3_HUMAN	popeye protein 3	24						integral to membrane				skin(3)|ovary(2)	5		all_cancers(87;4.87e-05)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0157)|Colorectal(196;0.202)|Lung NSC(302;0.238)				CTCCTTCGGCCTCTTGCTTCC	0.433													30	92					8.58068e-18	9.37822e-18	0.007291	1	0	
PREP	5550	broad.mit.edu	37	6	105730445	105730445	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:105730445G>A	uc003prc.2	-	13	1765	c.1562C>T	c.(1561-1563)GCC>GTC	p.A521V		NM_002726	NP_002717	P48147	PPCE_HUMAN	prolyl endopeptidase	521					proteolysis		serine-type endopeptidase activity			ovary(3)	3		all_cancers(87;0.000128)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0344)|Lung NSC(302;0.191)|Colorectal(196;0.202)			Oxytocin(DB00107)	TTGTTTGTTGGCCAAGATACC	0.378													18	124					0	0	0.010504	0	0	
PREP	5550	broad.mit.edu	37	6	105736746	105736746	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:105736746A>G	uc003prc.2	-	11	1544	c.1341T>C	c.(1339-1341)GGT>GGC	p.G447G		NM_002726	NP_002717	P48147	PPCE_HUMAN	prolyl endopeptidase	447					proteolysis		serine-type endopeptidase activity			ovary(3)	3		all_cancers(87;0.000128)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0344)|Lung NSC(302;0.191)|Colorectal(196;0.202)			Oxytocin(DB00107)	GAATCTTCGTACCATCCTTGC	0.353													16	57					0	0	0.004007	0	0	
PRDM1	639	broad.mit.edu	37	6	106553770	106553770	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:106553770G>A	uc003prd.2	+	5	1969	c.1735G>A	c.(1735-1737)GTT>ATT	p.V579I	PRDM1_uc003pre.2_Missense_Mutation_p.V445I	NM_001198	NP_001189	O75626	PRDM1_HUMAN	PR domain containing 1, with ZNF domain isoform	579	C2H2-type 1.				negative regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding	p.?(1)		haematopoietic_and_lymphoid_tissue(54)|ovary(1)|skin(1)	56	Breast(9;0.022)	all_cancers(87;2.2e-31)|all_epithelial(87;2.03e-21)|Acute lymphoblastic leukemia(125;4.99e-11)|all_lung(197;7.55e-09)|all_hematologic(75;5.82e-08)|Lung NSC(302;1.28e-06)|Colorectal(196;0.0112)|Ovarian(999;0.0365)		all cancers(137;1.83e-46)|Epithelial(106;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(136;1.99e-20)|GBM - Glioblastoma multiforme(226;3.72e-11)|BRCA - Breast invasive adenocarcinoma(108;1.38e-05)		CGAATGCAACGTTTGCGCCAA	0.483			D|N|Mis|F|S		DLBCL								7	68					0	0	0.004482	0	0	
SOBP	55084	broad.mit.edu	37	6	107956476	107956476	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:107956476G>A	uc003prx.2	+	6	2932	c.2428G>A	c.(2428-2430)GCG>ACG	p.A810T		NM_018013	NP_060483	A7XYQ1	SOBP_HUMAN	sine oculis binding protein homolog	810							metal ion binding			ovary(1)	1		all_cancers(87;5.26e-06)|Acute lymphoblastic leukemia(125;2.87e-08)|all_hematologic(75;1.14e-06)|all_epithelial(87;0.00193)|Colorectal(196;0.156)		BRCA - Breast invasive adenocarcinoma(108;0.026)|all cancers(137;0.087)|Epithelial(106;0.104)|OV - Ovarian serous cystadenocarcinoma(136;0.154)		TAATAACCCCGCGGACGAGGA	0.647													20	47					0	0	0.010504	0	0	
FOXO3	2309	broad.mit.edu	37	6	108984700	108984700	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:108984700C>T	uc003psk.2	+	3	980	c.664C>T	c.(664-666)CGG>TGG	p.R222W	FOXO3_uc003psn.2_Intron|FOXO3_uc003psm.2_Missense_Mutation_p.R222W|FOXO3_uc011ean.1_Missense_Mutation_p.R2W|FOXO3_uc010kdj.1_Missense_Mutation_p.R2W	NM_201559	NP_963853	O43524	FOXO3_HUMAN	forkhead box O3A	222	Fork-head.				antral ovarian follicle growth|apoptosis|embryo development|glucose homeostasis|induction of apoptosis|initiation of primordial ovarian follicle growth|insulin receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|oocyte maturation|ovulation from ovarian follicle|pattern specification process|phosphatidylinositol-mediated signaling|positive regulation of erythrocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of cell proliferation|regulation of sequence-specific DNA binding transcription factor activity|tissue development	cytosol|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein kinase binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding			central_nervous_system(4)|lung(2)	6		all_cancers(87;1.78e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;3.88e-05)|Colorectal(196;0.0294)|all_lung(197;0.0487)|Lung SC(18;0.152)		Epithelial(106;0.000759)|all cancers(137;0.00121)|BRCA - Breast invasive adenocarcinoma(108;0.00163)|OV - Ovarian serous cystadenocarcinoma(136;0.00718)		TCGATTCATGCGGGTCCAGAA	0.552													13	44					0	0	0.004990	0	0	
FIG4	9896	broad.mit.edu	37	6	110146311	110146311	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:110146311C>T	uc003ptt.2	+	23	2782	c.2567C>T	c.(2566-2568)TCG>TTG	p.S856L	FIG4_uc011eau.1_Missense_Mutation_p.S550L	NM_014845	NP_055660	Q92562	FIG4_HUMAN	Sac domain-containing inositol phosphatase 3	856					cell death	endosome membrane	protein binding			ovary(1)	1		all_cancers(87;8.63e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.000124)|all_lung(197;0.0187)|Colorectal(196;0.0492)|Lung SC(18;0.0548)		OV - Ovarian serous cystadenocarcinoma(136;0.0355)|Epithelial(106;0.038)|all cancers(137;0.0425)|BRCA - Breast invasive adenocarcinoma(108;0.079)		TCGGCTTTCTCGCAAGATAAC	0.458													8	150					0	0	0.006214	0	0	
WASF1	8936	broad.mit.edu	37	6	110421800	110421800	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:110421800C>T	uc003ptv.1	-	11	2442	c.1605G>A	c.(1603-1605)CTG>CTA	p.L535L	WASF1_uc003ptw.1_Silent_p.L535L|WASF1_uc003ptx.1_Silent_p.L535L|WASF1_uc003pty.1_Silent_p.L535L	NM_003931	NP_003922	Q92558	WASF1_HUMAN	Wiskott-Aldrich syndrome protein family member	535					actin filament polymerization|cellular component movement	actin cytoskeleton	actin binding				0		all_cancers(87;1.18e-05)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00159)|Colorectal(196;0.0488)		OV - Ovarian serous cystadenocarcinoma(136;0.0364)|Epithelial(106;0.051)|all cancers(137;0.0687)		TACGGCGAGACAGGATGGTGG	0.393													14	49					0	0	0.004007	0	0	
CDC40	51362	broad.mit.edu	37	6	110547422	110547422	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:110547422C>T	uc003pua.2	+	13	1417	c.1393C>T	c.(1393-1395)CCT>TCT	p.P465S		NM_015891	NP_056975	O60508	PRP17_HUMAN	cell division cycle 40 homolog	465	WD 5.				mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm					0		all_cancers(87;6.23e-06)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00159)|Colorectal(196;0.0488)		Epithelial(106;0.0221)|all cancers(137;0.0314)|OV - Ovarian serous cystadenocarcinoma(136;0.034)		GCACTCAATGCCTGCAGTGAC	0.328													5	87					0	0	0.001168	0	0	
SLC22A16	85413	broad.mit.edu	37	6	110746270	110746270	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:110746270C>T	uc003puf.2	-	8	1607	c.1540G>A	c.(1540-1542)GCC>ACC	p.A514T	SLC22A16_uc003pue.2_Missense_Mutation_p.A495T	NM_033125	NP_149116	Q86VW1	S22AG_HUMAN	solute carrier family 22, member 16	514	Helical; (Potential).				acid secretion|cell differentiation|multicellular organismal development|single fertilization|sperm motility|spermatogenesis	integral to membrane	carnitine transporter activity			ovary(1)	1		all_cancers(87;0.00221)|Acute lymphoblastic leukemia(125;2.27e-07)|all_hematologic(75;1.38e-05)|all_epithelial(87;0.0485)|Colorectal(196;0.101)		OV - Ovarian serous cystadenocarcinoma(136;0.0513)|Epithelial(106;0.0921)|all cancers(137;0.115)		CTCAGGAGGGCCATAGTCCCA	0.423													16	70					0	0	0.004007	0	0	
REV3L	5980	broad.mit.edu	37	6	111694065	111694065	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:111694065G>A	uc003puy.3	-	13	5816	c.5493C>T	c.(5491-5493)GAC>GAT	p.D1831D	REV3L_uc003pux.3_Silent_p.D1753D|REV3L_uc003puz.3_Silent_p.D1753D	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	1831					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		CACAGGCCACGTCTACAAGTT	0.423								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					8	189					0	0	0.004482	0	0	
LAMA4	3910	broad.mit.edu	37	6	112460964	112460964	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:112460964G>A	uc003pvu.2	-	23	3409	c.3100C>T	c.(3100-3102)CCA>TCA	p.P1034S	LAMA4_uc003pvv.2_Missense_Mutation_p.P1027S|LAMA4_uc003pvt.2_Missense_Mutation_p.P1027S	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	1034	Laminin G-like 1.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		CGGGCACATGGCACTGATGTG	0.423													30	126					0	0	0.003271	0	0	
LAMA4	3910	broad.mit.edu	37	6	112508790	112508790	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:112508790G>A	uc003pvu.2	-	8	1137	c.828C>T	c.(826-828)TGC>TGT	p.C276C	LAMA4_uc003pvv.2_Silent_p.C269C|LAMA4_uc003pvt.2_Silent_p.C269C	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	276	Domain II and I.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		GGTCCCAGACGCACTTATCAC	0.517													4	27					0	0	0.001984	0	0	
HDAC2	3066	broad.mit.edu	37	6	114266574	114266574	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:114266574G>T	uc003pwd.1	-	10	1325	c.1325C>A	c.(1324-1326)CCT>CAT	p.P442H	HDAC2_uc003pwc.1_Missense_Mutation_p.P318H|HDAC2_uc003pwe.1_Missense_Mutation_p.P318H	NM_001527	NP_001518	Q92769	HDAC2_HUMAN	histone deacetylase 2	348					blood coagulation|dendrite development|embryonic digit morphogenesis|epidermal cell differentiation|eyelid development in camera-type eye|fungiform papilla formation|hair follicle placode formation|maintenance of chromatin silencing|negative regulation of apoptosis|negative regulation of cell cycle|negative regulation of neuron projection development|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|odontogenesis of dentine-containing tooth|positive regulation of cell proliferation|positive regulation of proteolysis|positive regulation of receptor biosynthetic process|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|ESC/E(Z) complex|NuRD complex|Sin3 complex	chromatin binding|enzyme binding|histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|sequence-specific DNA binding|transcription factor binding			skin(2)|ovary(1)|central_nervous_system(1)	4		all_cancers(87;0.000629)|all_epithelial(87;0.00274)|Colorectal(196;0.0317)|all_lung(197;0.24)		all cancers(137;0.00318)|OV - Ovarian serous cystadenocarcinoma(136;0.00569)|Epithelial(106;0.0112)|GBM - Glioblastoma multiforme(226;0.0832)	Vorinostat(DB02546)	CATGTTTGAAGGACTAATATG	0.279													10	145					1.5842e-08	1.6949e-08	0.001855	1	0	
HS3ST5	222537	broad.mit.edu	37	6	114379185	114379185	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:114379185C>T	uc003pwg.3	-	2	309	c.277G>A	c.(277-279)GCC>ACC	p.A93T	uc003pwf.2_Intron|HS3ST5_uc003pwh.3_Missense_Mutation_p.A93T	NM_153612	NP_705840	Q8IZT8	HS3S5_HUMAN	heparan sulfate (glucosamine)	93	Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process, enzymatic modification|negative regulation of coagulation|protein sulfation|regulation of virion penetration into host cell	Golgi membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity|protein binding			ovary(1)|pancreas(1)	2		all_cancers(87;0.0587)|Colorectal(196;0.0676)|all_epithelial(87;0.154)		OV - Ovarian serous cystadenocarcinoma(136;0.00937)|all cancers(137;0.0117)|Epithelial(106;0.0274)|GBM - Glioblastoma multiforme(226;0.143)		ATGATAATGGCCTTGGGGAGC	0.557													20	61					0	0	0.002780	0	0	
HS3ST5	222537	broad.mit.edu	37	6	114379236	114379236	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:114379236C>T	uc003pwg.3	-	2	258	c.226G>A	c.(226-228)GCT>ACT	p.A76T	uc003pwf.2_Intron|HS3ST5_uc003pwh.3_Missense_Mutation_p.A76T	NM_153612	NP_705840	Q8IZT8	HS3S5_HUMAN	heparan sulfate (glucosamine)	76	Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process, enzymatic modification|negative regulation of coagulation|protein sulfation|regulation of virion penetration into host cell	Golgi membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity|protein binding			ovary(1)|pancreas(1)	2		all_cancers(87;0.0587)|Colorectal(196;0.0676)|all_epithelial(87;0.154)		OV - Ovarian serous cystadenocarcinoma(136;0.00937)|all cancers(137;0.0117)|Epithelial(106;0.0274)|GBM - Glioblastoma multiforme(226;0.143)		TCCTTGGAAGCGTTGCCCTTC	0.592													8	38					0	0	0.004482	0	0	
TSPYL4	23270	broad.mit.edu	37	6	116574209	116574209	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:116574209G>A	uc003pwn.2	-	1	1053	c.963C>T	c.(961-963)GGC>GGT	p.G321G	DSE_uc011ebf.1_5'Flank|TSPYL4_uc011ebe.1_Silent_p.G149G|uc003pwo.1_5'Flank	NM_021648	NP_067680	Q9UJ04	TSYL4_HUMAN	TSPY-like 4	321					nucleosome assembly	nucleus					0		all_cancers(87;0.0144)|all_epithelial(87;0.021)|Colorectal(196;0.234)		all cancers(137;0.045)|OV - Ovarian serous cystadenocarcinoma(136;0.0666)|GBM - Glioblastoma multiforme(226;0.095)|Epithelial(106;0.125)		ACACCACCCGGCCAGAGGATC	0.537													8	56					0	0	0.004482	0	0	
DSE	29940	broad.mit.edu	37	6	116757490	116757490	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:116757490A>G	uc003pws.2	+	6	2053	c.1859A>G	c.(1858-1860)GAC>GGC	p.D620G	DSE_uc011ebg.1_Missense_Mutation_p.D639G|DSE_uc003pwt.2_Missense_Mutation_p.D620G|DSE_uc003pwu.2_Missense_Mutation_p.D287G	NM_001080976	NP_001074445	Q9UL01	DSE_HUMAN	dermatan sulfate epimerase precursor	620					dermatan sulfate biosynthetic process	endoplasmic reticulum|Golgi apparatus|integral to membrane	chondroitin-glucuronate 5-epimerase activity			ovary(1)	1		all_cancers(87;0.00019)|all_epithelial(87;0.000416)|Ovarian(999;0.133)|Colorectal(196;0.234)		Epithelial(106;0.00915)|OV - Ovarian serous cystadenocarcinoma(136;0.0149)|GBM - Glioblastoma multiforme(226;0.0189)|all cancers(137;0.0262)		TACTGGATGGACGATACTGGC	0.473													13	67					0	0	0.007413	0	0	
RFX6	222546	broad.mit.edu	37	6	117246695	117246695	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:117246695C>T	uc003pxm.2	+	16	1821	c.1758C>T	c.(1756-1758)AGC>AGT	p.S586S		NM_173560	NP_775831	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	586					glucose homeostasis|pancreatic A cell differentiation|pancreatic D cell differentiation|pancreatic E cell differentiation|positive regulation of transcription, DNA-dependent|regulation of insulin secretion|transcription, DNA-dependent|type B pancreatic cell differentiation	nucleus	protein binding|transcription regulatory region DNA binding			ovary(1)|pancreas(1)|skin(1)	3						TGGTTTCCAGCGACGCTGTGA	0.512													6	138					0	0	0.001168	0	0	
SLC35F1	222553	broad.mit.edu	37	6	118475668	118475668	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:118475668C>A	uc003pxx.3	+	2	435	c.234C>A	c.(232-234)GGC>GGA	p.G78G		NM_001029858	NP_001025029	Q5T1Q4	S35F1_HUMAN	solute carrier family 35, member F1	78	Helical; (Potential).				transport	integral to membrane				breast(1)	1				GBM - Glioblastoma multiforme(226;0.217)		GTGGAATTGGCTTGACTAGCA	0.438													36	101					5.59293e-11	6.02822e-11	0.006999	1	0	
SLC35F1	222553	broad.mit.edu	37	6	118606424	118606424	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:118606424G>A	uc003pxx.3	+	7	1126	c.925G>A	c.(925-927)GCC>ACC	p.A309T	SLC35F1_uc003pxy.1_Missense_Mutation_p.A114T	NM_001029858	NP_001025029	Q5T1Q4	S35F1_HUMAN	solute carrier family 35, member F1	309					transport	integral to membrane				breast(1)	1				GBM - Glioblastoma multiforme(226;0.217)		GAAAACCAGTGCCACTTCAGT	0.473											OREG0017635	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	342					0	0	0.008871	0	0	
C6orf204	387119	broad.mit.edu	37	6	118790423	118790423	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:118790423C>T	uc003pxz.1	-	12	2654	c.2066G>A	c.(2065-2067)GGC>GAC	p.G689D		NM_001042475	NP_001035940	Q5SZL2	CF204_HUMAN	chromosome 6 open reading frame 204 isoform a	689						centrosome				breast(1)	1		all_cancers(87;0.0814)|all_epithelial(87;0.115)		GBM - Glioblastoma multiforme(226;0.0114)|all cancers(137;0.035)|OV - Ovarian serous cystadenocarcinoma(136;0.0618)		AGGTTCCTGGCCCTGATCCAA	0.413													22	145					0	0	0.010504	0	0	
C6orf204	387119	broad.mit.edu	37	6	118801652	118801652	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:118801652G>A	uc003pxz.1	-	9	2358	c.1770C>T	c.(1768-1770)TGC>TGT	p.C590C		NM_001042475	NP_001035940	Q5SZL2	CF204_HUMAN	chromosome 6 open reading frame 204 isoform a	590	Potential.					centrosome				breast(1)	1		all_cancers(87;0.0814)|all_epithelial(87;0.115)		GBM - Glioblastoma multiforme(226;0.0114)|all cancers(137;0.035)|OV - Ovarian serous cystadenocarcinoma(136;0.0618)		CATCTTCAAGGCATCTTTCTA	0.323													15	111					0	0	0.004007	0	0	
MCM9	254394	broad.mit.edu	37	6	119238739	119238739	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:119238739G>A	uc003pyh.2	-	5	1154	c.891C>T	c.(889-891)AGC>AGT	p.S297S		NM_153255	NP_694987	Q9NXL9	MCM9_HUMAN	minichromosome maintenance complex component 9	297					DNA replication		ATP binding|DNA binding|nucleoside-triphosphatase activity			ovary(1)	1		all_cancers(87;0.122)|all_epithelial(87;0.179)		GBM - Glioblastoma multiforme(226;0.0676)|OV - Ovarian serous cystadenocarcinoma(136;0.194)		CAAAGGGATCGCTCTTATAGT	0.353													19	90					0	0	0.001882	0	0	
GJA1	2697	broad.mit.edu	37	6	121768421	121768421	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:121768421G>A	uc003pyr.2	+	2	678	c.428G>A	c.(427-429)GGT>GAT	p.G143D	GJA1_uc011ebo.1_Missense_Mutation_p.G44D|GJA1_uc011ebp.1_Intron	NM_000165	NP_000156	P17302	CXA1_HUMAN	connexin 43	143	Cytoplasmic (Potential).				cell-cell signaling|cellular membrane organization|gap junction assembly|heart development|muscle contraction|positive regulation of I-kappaB kinase/NF-kappaB cascade	connexon complex|Golgi-associated vesicle membrane|integral to plasma membrane|membrane raft	ion transmembrane transporter activity|signal transducer activity			ovary(2)	2				GBM - Glioblastoma multiforme(226;0.00252)	Carvedilol(DB01136)	GAAGAGCATGGTAAGGTGAAA	0.458													10	135					0	0	0.000978	0	0	
FABP7	2173	broad.mit.edu	37	6	123104893	123104893	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:123104893G>A	uc003pzf.2	+	4	674	c.380G>A	c.(379-381)CGC>CAC	p.R127H	FABP7_uc003pze.1_3'UTR	NM_001446	NP_001437	O15540	FABP7_HUMAN	fatty acid binding protein 7, brain	127	Fatty acid binding.				negative regulation of cell proliferation	cytoplasm	lipid binding|transporter activity				0				GBM - Glioblastoma multiforme(226;0.226)	Alpha-Linolenic Acid(DB00132)|gamma-Homolinolenic acid(DB00154)|Icosapent(DB00159)	GTTGCTGTTCGCCACTATGAG	0.403													5	77					0	0	0.001168	0	0	
STL	7955	broad.mit.edu	37	6	125233607	125233607	+	RNA	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:125233607C>T	uc003pzq.2	-	7		c.1127G>A				NR_026876				Homo sapiens mRNA; cDNA DKFZp451I132 (from clone DKFZp451I132).												0						GCTTTCTTGGCTAATATGATT	0.368			T	ETV6	B-ALL								3	62					0	0	0.004672	0	0	
RNF217	154214	broad.mit.edu	37	6	125379190	125379190	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:125379190C>T	uc003pzs.2	+	5	681	c.343C>T	c.(343-345)CGT>TGT	p.R115C	RNF217_uc003pzr.2_Missense_Mutation_p.R172C|RNF217_uc003pzt.2_RNA	NM_152553	NP_689766	Q8TC41	RN217_HUMAN	ring finger protein 217	115					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	integral to membrane	ubiquitin-protein ligase activity|zinc ion binding				0			LUSC - Lung squamous cell carcinoma(4;0.0263)|Lung(4;0.0828)	GBM - Glioblastoma multiforme(226;0.0162)		CAAATTGTTGCGTCACTGGGC	0.463													11	61					0	0	0.001368	0	0	
TPD52L1	7164	broad.mit.edu	37	6	125550412	125550412	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:125550412C>T	uc003pzu.1	+	3	503	c.284C>T	c.(283-285)GCC>GTC	p.A95V	TPD52L1_uc003pzv.1_Missense_Mutation_p.A95V|TPD52L1_uc003pzw.1_Missense_Mutation_p.A95V|TPD52L1_uc003pzx.1_Missense_Mutation_p.A66V|TPD52L1_uc003pzy.1_Missense_Mutation_p.A66V|TPD52L1_uc003pzz.1_Missense_Mutation_p.A66V	NM_003287	NP_003278	Q16890	TPD53_HUMAN	tumor protein D52-like 1 isoform 1	95					DNA fragmentation involved in apoptotic nuclear change|G2/M transition of mitotic cell cycle|induction of apoptosis|positive regulation of JNK cascade|positive regulation of MAP kinase activity	perinuclear region of cytoplasm	caspase activator activity|protein heterodimerization activity|protein homodimerization activity				0			LUSC - Lung squamous cell carcinoma(4;0.0263)|Lung(4;0.0828)	GBM - Glioblastoma multiforme(226;0.0265)		ACTACCACTGCGTAAGTATCA	0.388													9	81					0	0	0.008291	0	0	
HEY2	23493	broad.mit.edu	37	6	126080924	126080924	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:126080924G>T	uc003qad.2	+	5	1181	c.990G>T	c.(988-990)TGG>TGT	p.W330C	HEY2_uc011ebr.1_Missense_Mutation_p.W284C	NM_012259	NP_036391	Q9UBP5	HEY2_HUMAN	hairy/enhancer-of-split related with YRPW motif	330	YRPW motif.				negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription initiation from RNA polymerase II promoter|negative regulation of transcription regulatory region DNA binding|Notch signaling pathway|smooth muscle cell differentiation|transcription, DNA-dependent	transcriptional repressor complex	histone deacetylase binding|RNA polymerase II activating transcription factor binding|sequence-specific DNA binding			breast(1)	1				UCEC - Uterine corpus endometrioid carcinoma (4;0.0608)|GBM - Glioblastoma multiforme(226;0.0361)|all cancers(137;0.193)		ACCGACCCTGGGGGACAGAAG	0.493													30	47					2.61193e-14	2.83925e-14	0.009535	1	0	
C6orf174	387104	broad.mit.edu	37	6	127796499	127796499	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:127796499C>T	uc003qbd.2	-	6	3537	c.2672G>A	c.(2671-2673)CGC>CAC	p.R891H	C6orf174_uc003qbc.2_5'UTR	NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	891						integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		CACCTCGAGGCGGTCGATGAA	0.652													8	25					0	0	0.003080	0	0	
C6orf174	387104	broad.mit.edu	37	6	127796980	127796980	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:127796980A>G	uc003qbd.2	-	6	3056	c.2191T>C	c.(2191-2193)TCC>CCC	p.S731P	C6orf174_uc003qbc.2_5'Flank	NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	731						integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		TGCATGTTGGACATAAGCACG	0.672													9	43					0	0	0.008291	0	0	
C6orf174	387104	broad.mit.edu	37	6	127797299	127797299	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:127797299G>A	uc003qbd.2	-	6	2737	c.1872C>T	c.(1870-1872)GGC>GGT	p.G624G	C6orf174_uc003qbc.2_5'Flank	NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	624	Potential.					integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		TGAAGTCATCGCCCCTAAGGT	0.607													31	77					0	0	0.002852	0	0	
C6orf58	352999	broad.mit.edu	37	6	127911356	127911356	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:127911356C>T	uc003qbh.2	+	5	811	c.799C>T	c.(799-801)CCA>TCA	p.P267S		NM_001010905	NP_001010905	Q6P5S2	CF058_HUMAN	hypothetical protein LOC352999 precursor	267						extracellular region					0				GBM - Glioblastoma multiforme(226;0.0405)|all cancers(137;0.156)		GAAGGGCATGCCACCACGAAT	0.413													44	147					0	0	0.009718	0	0	
THEMIS	387357	broad.mit.edu	37	6	128134766	128134766	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:128134766G>A	uc003qbi.2	-	5	1339	c.1020C>T	c.(1018-1020)GGC>GGT	p.G340G	THEMIS_uc010kfa.2_Silent_p.G243G|THEMIS_uc011ebt.1_Silent_p.G340G|THEMIS_uc010kfb.2_Silent_p.G305G	NM_001010923	NP_001010923	Q8N1K5	THMS1_HUMAN	thymocyte selection pathway associated isoform	340	CABIT 2.				negative T cell selection|positive T cell selection|T cell receptor signaling pathway	cytoplasm|nucleus				ovary(2)|skin(2)	4						GCTTGAACTTGCCTTTATAGC	0.463													14	94					0	0	0.001855	0	0	
PTPRK	5796	broad.mit.edu	37	6	128505866	128505866	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:128505866C>T	uc003qbk.2	-	7	1240	c.873G>A	c.(871-873)CCG>CCA	p.P291P	PTPRK_uc003qbj.2_Silent_p.P291P|PTPRK_uc010kfc.2_Silent_p.P291P|PTPRK_uc011ebu.1_Silent_p.P291P|PTPRK_uc003qbl.1_Silent_p.P161P|PTPRK_uc011ebv.1_Silent_p.P291P	NM_002844	NP_002835	Q15262	PTPRK_HUMAN	protein tyrosine phosphatase, receptor type, K	291	Fibronectin type-III 1.|Extracellular (Potential).				cell migration|cellular response to reactive oxygen species|cellular response to UV|focal adhesion assembly|negative regulation of cell cycle|negative regulation of cell migration|negative regulation of keratinocyte proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transforming growth factor beta receptor signaling pathway	adherens junction|cell surface|cell-cell junction|integral to plasma membrane|leading edge membrane	beta-catenin binding|gamma-catenin binding|protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|skin(2)|pancreas(1)|kidney(1)|central_nervous_system(1)	8				all cancers(137;0.0118)|GBM - Glioblastoma multiforme(226;0.0372)|OV - Ovarian serous cystadenocarcinoma(136;0.24)		TGGGTCTTGGCGGTTCTAGGA	0.398													6	71					0	0	0.001984	0	0	
LAMA2	3908	broad.mit.edu	37	6	129775324	129775324	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:129775324C>T	uc003qbn.2	+	46	6703	c.6598C>T	c.(6598-6600)CGT>TGT	p.R2200C	LAMA2_uc003qbo.2_Missense_Mutation_p.R2200C	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	2200	Laminin G-like 1.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		TATAGAAATGCGTAAAGGCAA	0.398													5	100					0	0	0.001168	0	0	
L3MBTL3	84456	broad.mit.edu	37	6	130372535	130372535	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:130372535C>A	uc003qbt.2	+	6	601	c.431C>A	c.(430-432)GCT>GAT	p.A144D	L3MBTL3_uc003qbu.2_Missense_Mutation_p.A119D	NM_032438	NP_115814	Q96JM7	LMBL3_HUMAN	l(3)mbt-like 3 isoform a	144					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.0266)|OV - Ovarian serous cystadenocarcinoma(155;0.154)		CAGAATTGTGCTCGGCACATC	0.408													6	125					8.12818e-05	8.5301e-05	0.001984	1	0	
SAMD3	154075	broad.mit.edu	37	6	130465849	130465849	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:130465849T>C	uc003qbv.2	-	13	1705	c.1379A>G	c.(1378-1380)GAC>GGC	p.D460G	SAMD3_uc003qbx.2_Missense_Mutation_p.D460G|SAMD3_uc003qbw.2_Missense_Mutation_p.D460G	NM_001017373	NP_001017373	Q8N6K7	SAMD3_HUMAN	sterile alpha motif domain containing 3 isoform	460										ovary(1)	1				GBM - Glioblastoma multiforme(226;0.00594)|OV - Ovarian serous cystadenocarcinoma(155;0.128)		AACACAGTCGTCCACCTTTGT	0.443													17	66					0	0	0.001882	0	0	
TAAR6	319100	broad.mit.edu	37	6	132891588	132891588	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:132891588C>T	uc011eck.1	+	1	128	c.128C>T	c.(127-129)GCT>GTT	p.A43V		NM_175067	NP_778237	Q96RI8	TAAR6_HUMAN	trace amine associated receptor 6	43	Helical; Name=1; (Potential).					plasma membrane	G-protein coupled receptor activity			ovary(2)|skin(1)	3	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.006)|GBM - Glioblastoma multiforme(226;0.00792)		GGCTTTGGGGCTGTGCTGGCT	0.537													18	62					0	0	0.007413	0	0	
TAAR5	9038	broad.mit.edu	37	6	132910431	132910431	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:132910431C>T	uc003qdk.2	-	1	447	c.395G>A	c.(394-396)CGC>CAC	p.R132H		NM_003967	NP_003958	O14804	TAAR5_HUMAN	trace amine associated receptor 5	132	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity			skin(1)	1	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.00604)|GBM - Glioblastoma multiforme(226;0.015)		GGCACAGTGGCGGTCAATGGA	0.582													16	44					0	0	0.006122	0	0	
TAAR5	9038	broad.mit.edu	37	6	132910625	132910625	+	Silent	SNP	C	T	T	rs145737701		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:132910625C>T	uc003qdk.2	-	1	253	c.201G>A	c.(199-201)ACG>ACA	p.T67T		NM_003967	NP_003958	O14804	TAAR5_HUMAN	trace amine associated receptor 5	67	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity			skin(1)	1	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.00604)|GBM - Glioblastoma multiforme(226;0.015)		AGTTGGTGGGCGTGTGAAGCG	0.557													26	94					0	0	0.007291	0	0	
EYA4	2070	broad.mit.edu	37	6	133789774	133789774	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:133789774C>T	uc003qec.3	+	11	1333	c.875C>T	c.(874-876)GCG>GTG	p.A292V	EYA4_uc011ecq.1_Missense_Mutation_p.A238V|EYA4_uc011ecr.1_Missense_Mutation_p.A238V|EYA4_uc003qed.3_Missense_Mutation_p.A292V|EYA4_uc003qee.3_Missense_Mutation_p.A269V|EYA4_uc011ecs.1_Missense_Mutation_p.A292V|uc003qef.1_Intron	NM_004100	NP_004091	O95677	EYA4_HUMAN	eyes absent 4 isoform a	292					anatomical structure morphogenesis|chromatin modification|DNA repair|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			large_intestine(2)	2	Colorectal(23;0.221)			GBM - Glioblastoma multiforme(68;0.00457)|OV - Ovarian serous cystadenocarcinoma(155;0.0152)		ACGTATGGAGCGTATATGACA	0.433													21	87					0	0	0.002780	0	0	
SLC2A12	154091	broad.mit.edu	37	6	134350436	134350436	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:134350436A>G	uc003qem.1	-	2	698	c.527T>C	c.(526-528)GTC>GCC	p.V176A		NM_145176	NP_660159	Q8TD20	GTR12_HUMAN	solute carrier family 2 (facilitated glucose	176	Helical; (Potential).					endomembrane system|integral to membrane|perinuclear region of cytoplasm|plasma membrane	D-glucose transmembrane transporter activity			ovary(1)	1	Breast(56;0.214)|Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.0101)|GBM - Glioblastoma multiforme(68;0.0123)		AATGCCGATGACAATCATCAG	0.438													12	87					0	0	0.001855	0	0	
ALDH8A1	64577	broad.mit.edu	37	6	135271176	135271176	+	Missense_Mutation	SNP	C	T	T	rs150345681	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:135271176C>T	uc003qew.2	-	1	69	c.16G>A	c.(16-18)GCA>ACA	p.A6T	ALDH8A1_uc003qex.2_Missense_Mutation_p.A6T|ALDH8A1_uc010kgh.2_5'UTR|ALDH8A1_uc011ecx.1_Missense_Mutation_p.A6T	NM_022568	NP_072090	Q9H2A2	AL8A1_HUMAN	aldehyde dehydrogenase 8A1 isoform 1	6					retinal metabolic process	cytoplasm	retinal dehydrogenase activity			ovary(2)|pancreas(1)|skin(1)	4	Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.00401)|GBM - Glioblastoma multiforme(68;0.0058)		ATCAAAAGTGCGTTTGTTCCA	0.448													10	56					0	0	0.006214	0	0	
BCLAF1	9774	broad.mit.edu	37	6	136597397	136597397	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:136597397A>T	uc003qgx.1	-	5	1519	c.1266T>A	c.(1264-1266)AGT>AGA	p.S422R	BCLAF1_uc003qgw.1_Intron|BCLAF1_uc003qgy.1_Missense_Mutation_p.S420R|BCLAF1_uc011edc.1_Intron|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.S420R	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	422					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		CAGTAGCAAAACTTTTACCCT	0.423													34	256					0	0	0.003271	0	0	
PEX7	5191	broad.mit.edu	37	6	137187847	137187847	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:137187847T>C	uc003qhd.2	+	6	711	c.609T>C	c.(607-609)AGT>AGC	p.S203S	PEX7_uc010kgx.2_RNA	NM_000288	NP_000279	O00628	PEX7_HUMAN	peroxisomal biogenesis factor 7	203	WD 4.				ether lipid biosynthetic process|protein import into peroxisome matrix	peroxisome	peroxisome matrix targeting signal-2 binding				0	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000257)|OV - Ovarian serous cystadenocarcinoma(155;0.00492)		AAATCTTGAGTTGTGACTGGT	0.388													4	52					0	0	0.000602	0	0	
IL20RA	53832	broad.mit.edu	37	6	137322948	137322948	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:137322948C>A	uc003qhj.2	-	7	1842	c.1409G>T	c.(1408-1410)GGG>GTG	p.G470V	IL20RA_uc011edl.1_Missense_Mutation_p.G421V|IL20RA_uc003qhk.2_Missense_Mutation_p.G359V|IL20RA_uc003qhi.2_Missense_Mutation_p.G202V	NM_014432	NP_055247	Q9UHF4	I20RA_HUMAN	interleukin 20 receptor, alpha precursor	470	Cytoplasmic (Potential).					integral to membrane	receptor activity			ovary(2)|skin(2)	4	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000351)|OV - Ovarian serous cystadenocarcinoma(155;0.00459)		TTCCTCCGGCCCCTCCTCCGA	0.607													18	55					1.96292e-10	2.11133e-10	0.010504	1	0	
KIAA1244	57221	broad.mit.edu	37	6	138655785	138655785	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:138655785C>T	uc003qhu.2	+	33	5802	c.5802C>T	c.(5800-5802)GGC>GGT	p.G1934G		NM_020340	NP_065073	Q5TH69	BIG3_HUMAN	brefeldin A-inhibited guanine	1934					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)|skin(1)	2	Breast(32;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00102)|GBM - Glioblastoma multiforme(68;0.00259)		TCTTCAAGGGCGACCCGTTCT	0.562													7	48					0	0	0.003080	0	0	
REPS1	85021	broad.mit.edu	37	6	139234053	139234053	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:139234053G>A	uc003qii.2	-	16	2399	c.1820C>T	c.(1819-1821)GCC>GTC	p.A607V	REPS1_uc003qig.3_Missense_Mutation_p.A580V|REPS1_uc011edr.1_Missense_Mutation_p.A606V|REPS1_uc003qij.2_Missense_Mutation_p.A516V|REPS1_uc003qik.2_Missense_Mutation_p.A213V	NM_031922	NP_114128	Q96D71	REPS1_HUMAN	RALBP1 associated Eps domain containing 1	607						coated pit|plasma membrane	calcium ion binding|SH3 domain binding			lung(1)|breast(1)	2				GBM - Glioblastoma multiforme(68;0.000434)|OV - Ovarian serous cystadenocarcinoma(155;0.000548)		GAGGCCATCGGCATCCACTGG	0.468													8	25					0	0	0.004482	0	0	
HECA	51696	broad.mit.edu	37	6	139495646	139495646	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:139495646C>T	uc003qin.2	+	3	1722	c.1437C>T	c.(1435-1437)TAC>TAT	p.Y479Y		NM_016217	NP_057301	Q9UBI9	HDC_HUMAN	headcase	479					respiratory tube development						0				GBM - Glioblastoma multiforme(68;0.000252)|OV - Ovarian serous cystadenocarcinoma(155;0.000387)		TGTACACCTACGACATCCTGG	0.537													12	49					0	0	0.001855	0	0	
TXLNB	167838	broad.mit.edu	37	6	139563913	139563913	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:139563913G>A	uc011eds.1	-	10	1970	c.1805C>T	c.(1804-1806)GCG>GTG	p.A602V		NM_153235	NP_694967	Q8N3L3	TXLNB_HUMAN	taxilin beta	602						cytoplasm		p.A602A(1)		large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(155;0.000185)|GBM - Glioblastoma multiforme(68;0.000235)		CTTCCAGGACGCCTGATCAGC	0.612													11	57					0	0	0.001368	0	0	
TXLNB	167838	broad.mit.edu	37	6	139564109	139564109	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:139564109C>T	uc011eds.1	-	10	1774	c.1609G>A	c.(1609-1611)GCT>ACT	p.A537T		NM_153235	NP_694967	Q8N3L3	TXLNB_HUMAN	taxilin beta	537						cytoplasm				large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(155;0.000185)|GBM - Glioblastoma multiforme(68;0.000235)		TCCTTGAGAGCGGCGTCAGCA	0.567													5	83					0	0	0.001168	0	0	
TXLNB	167838	broad.mit.edu	37	6	139564112	139564112	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:139564112C>T	uc011eds.1	-	10	1771	c.1606G>A	c.(1606-1608)GCC>ACC	p.A536T		NM_153235	NP_694967	Q8N3L3	TXLNB_HUMAN	taxilin beta	536						cytoplasm				large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(155;0.000185)|GBM - Glioblastoma multiforme(68;0.000235)		TTGAGAGCGGCGTCAGCACTC	0.567													7	92					0	0	0.003080	0	0	
VTA1	51534	broad.mit.edu	37	6	142539701	142539701	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:142539701C>T	uc003qiw.2	+	8	860	c.845C>T	c.(844-846)GCT>GTT	p.A282V	VTA1_uc011edt.1_RNA|VTA1_uc011edu.1_Missense_Mutation_p.A197V	NM_016485	NP_057569	Q9NP79	VTA1_HUMAN	Vps20-associated 1 homolog	282	Interaction with VPS4B (By similarity).				cellular membrane organization|endosome transport|protein transport	cytosol|endosome membrane	protein binding				0	Breast(32;0.155)			OV - Ovarian serous cystadenocarcinoma(155;1.34e-05)|GBM - Glioblastoma multiforme(68;0.00182)		GCTGGCAGTGCTTTGCAGTAT	0.428													5	100					0	0	0.000602	0	0	
VTA1	51534	broad.mit.edu	37	6	142539749	142539749	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:142539749C>T	uc003qiw.2	+	8	908	c.893C>T	c.(892-894)GCT>GTT	p.A298V	VTA1_uc011edt.1_RNA|VTA1_uc011edu.1_Missense_Mutation_p.A213V	NM_016485	NP_057569	Q9NP79	VTA1_HUMAN	Vps20-associated 1 homolog	298	Interaction with VPS4B (By similarity).				cellular membrane organization|endosome transport|protein transport	cytosol|endosome membrane	protein binding				0	Breast(32;0.155)			OV - Ovarian serous cystadenocarcinoma(155;1.34e-05)|GBM - Glioblastoma multiforme(68;0.00182)		CTACAAAAGGCTCTCAAGTTA	0.443													6	86					0	0	0.003080	0	0	
GPR126	57211	broad.mit.edu	37	6	142758632	142758632	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:142758632G>A	uc010khc.2	+	23	3792	c.3381G>A	c.(3379-3381)CGG>CGA	p.R1127R	GPR126_uc010khd.2_Silent_p.R1099R|GPR126_uc010khe.2_Silent_p.R1127R|GPR126_uc010khf.2_Silent_p.R1099R|GPR126_uc011edv.1_Silent_p.Q187Q	NM_020455	NP_065188	Q86SQ4	GP126_HUMAN	G protein-coupled receptor 126 alpha 1	1127	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1	Breast(32;0.176)			OV - Ovarian serous cystadenocarcinoma(155;9.33e-06)|GBM - Glioblastoma multiforme(68;0.00121)		AGTGGCGGCAGCATCTCTGCT	0.363													5	60					0	0	0.000602	0	0	
HIVEP2	3097	broad.mit.edu	37	6	143092794	143092794	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:143092794G>A	uc003qjd.2	-	5	3825	c.3082C>T	c.(3082-3084)CGA>TGA	p.R1028*		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	1028					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		GAGCAGCGTCGCATCTCTTTC	0.507													8	78					0	0	0.004482	0	0	
HIVEP2	3097	broad.mit.edu	37	6	143093770	143093770	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:143093770G>A	uc003qjd.2	-	5	2849	c.2106C>T	c.(2104-2106)AGC>AGT	p.S702S		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	702					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		CATCCCCTACGCTCTTCTCTT	0.512													7	177					0	0	0.006214	0	0	
AIG1	51390	broad.mit.edu	37	6	143382137	143382137	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:143382137G>T	uc003qjh.2	+	1	115	c.75G>T	c.(73-75)AAG>AAT	p.K25N	AIG1_uc003qjf.2_Missense_Mutation_p.K15N|AIG1_uc003qji.2_Missense_Mutation_p.K15N|AIG1_uc011edw.1_Missense_Mutation_p.K25N|AIG1_uc003qjg.2_Missense_Mutation_p.K25N	NM_016108	NP_057192	Q9NVV5	AIG1_HUMAN	androgen-induced 1	25						integral to membrane					0				OV - Ovarian serous cystadenocarcinoma(155;2.34e-05)|GBM - Glioblastoma multiforme(68;0.0246)		GTAACTACAAGGCCATCGAAA	0.602													19	63					7.92952e-12	8.56966e-12	0.003954	1	0	
UTRN	7402	broad.mit.edu	37	6	144613000	144613000	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:144613000C>T	uc003qkt.2	+	1	128	c.36C>T	c.(34-36)GAC>GAT	p.D12D	UTRN_uc010khq.1_Silent_p.D12D	NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	12	Actin-binding.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		CCAGTCCTGACAATGGGCAGA	0.388													8	67					0	0	0.003080	0	0	
EPM2A	7957	broad.mit.edu	37	6	145948764	145948764	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:145948764C>T	uc003qkw.2	-	4	1141	c.784G>A	c.(784-786)GTG>ATG	p.V262M	EPM2A_uc003qkv.2_Missense_Mutation_p.V262M|EPM2A_uc010khr.2_Missense_Mutation_p.R181H|EPM2A_uc003qkx.2_Missense_Mutation_p.V124M|EPM2A_uc003qku.2_Missense_Mutation_p.V108M	NM_005670	NP_005661	O95278	EPM2A_HUMAN	laforin isoform a	262	Tyrosine-protein phosphatase.				glycogen metabolic process	cytosol|endoplasmic reticulum|nucleus|plasma membrane|polysome	carbohydrate binding|identical protein binding|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			pancreas(1)	1		Ovarian(120;0.162)		OV - Ovarian serous cystadenocarcinoma(155;3.38e-07)|GBM - Glioblastoma multiforme(68;0.0203)		TGCACGTACACGATGTGTCCC	0.607													6	23					0	0	0.001168	0	0	
GRM1	2911	broad.mit.edu	37	6	146720226	146720226	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:146720226G>A	uc010khw.1	+	8	2521	c.2051G>A	c.(2050-2052)CGC>CAC	p.R684H	GRM1_uc010khv.1_Missense_Mutation_p.R684H|GRM1_uc003qll.2_Missense_Mutation_p.R684H|GRM1_uc011edz.1_Missense_Mutation_p.R684H|GRM1_uc011eea.1_Missense_Mutation_p.R684H	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	684	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity	p.R684C(1)		lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	CGTATTGCACGCATCCTGGCT	0.522													32	136					0	0	0.003755	0	0	
GRM1	2911	broad.mit.edu	37	6	146720492	146720492	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:146720492A>G	uc010khw.1	+	8	2787	c.2317A>G	c.(2317-2319)AAG>GAG	p.K773E	GRM1_uc010khv.1_Missense_Mutation_p.K773E|GRM1_uc003qll.2_Missense_Mutation_p.K773E|GRM1_uc011edz.1_Missense_Mutation_p.K773E|GRM1_uc011eea.1_Missense_Mutation_p.K773E	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	773	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	CTATGCCTTCAAGACCCGCAA	0.502													20	78					0	0	0.008871	0	0	
SASH1	23328	broad.mit.edu	37	6	148808836	148808836	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:148808836C>T	uc003qme.1	+	8	1189	c.714C>T	c.(712-714)GGC>GGT	p.G238G		NM_015278	NP_056093	O94885	SASH1_HUMAN	SAM and SH3 domain containing 1	238							protein binding			central_nervous_system(1)	1		Ovarian(120;0.0169)		OV - Ovarian serous cystadenocarcinoma(155;5.63e-11)|GBM - Glioblastoma multiforme(68;0.0701)		CGTTTGATGGCTCATCAAACT	0.478													15	45					0	0	0.002450	0	0	
SASH1	23328	broad.mit.edu	37	6	148869651	148869651	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:148869651C>T	uc003qme.1	+	20	4176	c.3701C>T	c.(3700-3702)GCA>GTA	p.A1234V	SASH1_uc003qmf.1_Missense_Mutation_p.A644V	NM_015278	NP_056093	O94885	SASH1_HUMAN	SAM and SH3 domain containing 1	1234	SAM 2.						protein binding			central_nervous_system(1)	1		Ovarian(120;0.0169)		OV - Ovarian serous cystadenocarcinoma(155;5.63e-11)|GBM - Glioblastoma multiforme(68;0.0701)		CTCCTATCTGCAGCCAGACTC	0.572													9	57					0	0	0.006214	0	0	
PCMT1	5110	broad.mit.edu	37	6	150111190	150111190	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:150111190G>A	uc003qne.2	+	4	500	c.467G>A	c.(466-468)CGT>CAT	p.R156H	PCMT1_uc003qna.2_Missense_Mutation_p.R156H|PCMT1_uc003qnb.2_Missense_Mutation_p.R156H|PCMT1_uc011eeg.1_Missense_Mutation_p.R121H|PCMT1_uc003qnc.2_Missense_Mutation_p.R35H|PCMT1_uc003qnd.2_Intron|PCMT1_uc003qnf.2_Intron	NM_005389	NP_005380			protein-L-isoaspartate (D-aspartate)											ovary(1)	1		Ovarian(120;0.0907)	BRCA - Breast invasive adenocarcinoma(37;0.221)	OV - Ovarian serous cystadenocarcinoma(155;5.63e-13)|GBM - Glioblastoma multiforme(68;0.207)		TGTTTTGCACGTATGGTAAGA	0.363													9	87					0	0	0.006214	0	0	
LRP11	84918	broad.mit.edu	37	6	150174287	150174287	+	Missense_Mutation	SNP	G	A	A	rs150922217	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:150174287G>A	uc003qng.2	-	2	947	c.623C>T	c.(622-624)GCG>GTG	p.A208V	LRP11_uc003qnh.1_Missense_Mutation_p.A208V	NM_032832	NP_116221	Q86VZ4	LRP11_HUMAN	low density lipoprotein receptor-related protein	208	Extracellular (Potential).					integral to membrane	receptor activity				0		Ovarian(120;0.0907)	BRCA - Breast invasive adenocarcinoma(37;0.193)	OV - Ovarian serous cystadenocarcinoma(155;4.56e-12)|GBM - Glioblastoma multiforme(68;0.225)		AAGTGGAGGCGCATCCTTTTC	0.438													6	39					0	0	0.003080	0	0	
RAET1L	154064	broad.mit.edu	37	6	150342136	150342136	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:150342136G>A	uc011eei.1	-	3	597	c.536C>T	c.(535-537)GCC>GTC	p.A179V		NM_130900	NP_570970	Q5VY80	RET1L_HUMAN	retinoic acid early transcript 1L precursor	179	MHC class I alpha-2 like (By similarity).				antigen processing and presentation|immune response	anchored to membrane|MHC class I protein complex					0		Ovarian(120;0.028)	BRCA - Breast invasive adenocarcinoma(37;0.193)	OV - Ovarian serous cystadenocarcinoma(155;2.4e-12)		GAAGGACATGGCCACATCCTT	0.493													28	147					0	0	0.009535	0	0	
PLEKHG1	57480	broad.mit.edu	37	6	151054969	151054969	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:151054969C>T	uc003qny.1	+	3	464	c.152C>T	c.(151-153)GCC>GTC	p.A51V	PLEKHG1_uc011eel.1_Missense_Mutation_p.A91V|PLEKHG1_uc011eem.1_Missense_Mutation_p.A110V|PLEKHG1_uc003qnz.2_Missense_Mutation_p.A51V	NM_001029884	NP_001025055	Q9ULL1	PKHG1_HUMAN	pleckstrin homology domain containing, family G	51					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(37;0.0923)	OV - Ovarian serous cystadenocarcinoma(155;6.69e-13)		GAGGTAGGGGCCATAAAACTG	0.572													5	50					0	0	0.001984	0	0	
PLEKHG1	57480	broad.mit.edu	37	6	151130348	151130348	+	Silent	SNP	G	A	A	rs147935723	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:151130348G>A	uc003qny.1	+	9	1332	c.1020G>A	c.(1018-1020)ACG>ACA	p.T340T	PLEKHG1_uc011eel.1_Silent_p.T380T|PLEKHG1_uc011eem.1_Silent_p.T399T|PLEKHG1_uc003qnz.2_Silent_p.T340T	NM_001029884	NP_001025055	Q9ULL1	PKHG1_HUMAN	pleckstrin homology domain containing, family G	340	PH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(37;0.0923)	OV - Ovarian serous cystadenocarcinoma(155;6.69e-13)		ATGAGCGGACGCTCTTCCTCT	0.552													18	53					0	0	0.010504	0	0	
PLEKHG1	57480	broad.mit.edu	37	6	151152440	151152440	+	Silent	SNP	G	A	A	rs149258837		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:151152440G>A	uc003qny.1	+	16	2505	c.2193G>A	c.(2191-2193)ACG>ACA	p.T731T	PLEKHG1_uc011eel.1_Silent_p.T771T|PLEKHG1_uc011eem.1_Silent_p.T790T|PLEKHG1_uc003qnz.2_Silent_p.T731T	NM_001029884	NP_001025055	Q9ULL1	PKHG1_HUMAN	pleckstrin homology domain containing, family G	731					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(37;0.0923)	OV - Ovarian serous cystadenocarcinoma(155;6.69e-13)		GCCAAAGCACGCATGAACTCC	0.537													5	47					0	0	0.000602	0	0	
AKAP12	9590	broad.mit.edu	37	6	151671215	151671215	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:151671215C>T	uc011eep.1	+	4	1929	c.1689C>T	c.(1687-1689)GGC>GGT	p.G563G	AKAP12_uc003qoe.2_Silent_p.G563G|AKAP12_uc003qof.2_Silent_p.G465G|AKAP12_uc010kim.2_Intron|AKAP12_uc003qog.2_Silent_p.G458G	NM_005100	NP_005091	Q02952	AKA12_HUMAN	A kinase (PRKA) anchor protein 12 isoform 1	563					G-protein coupled receptor protein signaling pathway|positive regulation of cAMP biosynthetic process|positive regulation of protein kinase A signaling cascade|protein targeting	cell cortex|cytoskeleton|plasma membrane	adenylate cyclase binding|protein kinase A binding			large_intestine(2)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	8		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.98e-11)		AGCAAAAGGGCGAGAGCTCTG	0.572													10	27					0	0	0.002450	0	0	
AKAP12	9590	broad.mit.edu	37	6	151671867	151671867	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:151671867G>A	uc011eep.1	+	4	2581	c.2341G>A	c.(2341-2343)GAA>AAA	p.E781K	AKAP12_uc003qoe.2_Missense_Mutation_p.E781K|AKAP12_uc003qof.2_Missense_Mutation_p.E683K|AKAP12_uc010kim.2_Intron|AKAP12_uc003qog.2_Missense_Mutation_p.E676K	NM_005100	NP_005091	Q02952	AKA12_HUMAN	A kinase (PRKA) anchor protein 12 isoform 1	781	AKAP 2.				G-protein coupled receptor protein signaling pathway|positive regulation of cAMP biosynthetic process|positive regulation of protein kinase A signaling cascade|protein targeting	cell cortex|cytoskeleton|plasma membrane	adenylate cyclase binding|protein kinase A binding			large_intestine(2)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	8		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.98e-11)		AGAGAAAAGCGAAGACTCCAT	0.478													5	101					0	0	0.001984	0	0	
ZBTB2	57621	broad.mit.edu	37	6	151687601	151687601	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:151687601G>A	uc003qoh.2	-	3	735	c.600C>T	c.(598-600)ACC>ACT	p.T200T		NM_020861	NP_065912	Q8N680	ZBTB2_HUMAN	zinc finger and BTB domain containing 2	200					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1			BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.63e-11)		GAGACAGCGAGGTCTGCAGGG	0.597													4	51					0	0	0.000602	0	0	
ESR1	2099	broad.mit.edu	37	6	152201884	152201884	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:152201884C>T	uc003qom.3	+	5	1108	c.738C>T	c.(736-738)TAC>TAT	p.Y246Y	ESR1_uc010kin.2_Silent_p.Y246Y|ESR1_uc010kio.2_Silent_p.Y248Y|ESR1_uc010kip.2_Silent_p.Y246Y|ESR1_uc003qon.3_Silent_p.Y246Y|ESR1_uc003qoo.3_Silent_p.Y246Y|ESR1_uc010kiq.2_Nonsense_Mutation_p.R3*|ESR1_uc010kir.2_Intron|ESR1_uc011eet.1_Intron|ESR1_uc011eeu.1_RNA|ESR1_uc011eev.1_Intron|ESR1_uc011eew.1_Intron|ESR1_uc010kis.2_Silent_p.Y27Y|ESR1_uc011eex.1_Silent_p.Y27Y	NM_001122742	NP_001116214	P03372	ESR1_HUMAN	estrogen receptor alpha isoform 4	246	Nuclear receptor.|Mediates interaction with DNTTIP2.				positive regulation of retinoic acid receptor signaling pathway|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to estradiol stimulus	chromatin remodeling complex|cytoplasm|nucleoplasm	beta-catenin binding|enzyme binding|estrogen receptor activity|estrogen response element binding|nitric-oxide synthase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|zinc ion binding			central_nervous_system(2)|ovary(1)|lung(1)|breast(1)	5		Ovarian(120;0.0448)	BRCA - Breast invasive adenocarcinoma(37;0.0841)	OV - Ovarian serous cystadenocarcinoma(155;4.55e-10)	Chlorotrianisene(DB00269)|Clomifene(DB00882)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Desogestrel(DB00304)|Dienestrol(DB00890)|Diethylstilbestrol(DB00255)|Dromostanolone(DB00858)|Drospirenone(DB01395)|Estradiol(DB00783)|Estramustine(DB01196)|Estriol(DB04573)|Estrone(DB00655)|Ethinyl Estradiol(DB00977)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Fluoxymesterone(DB01185)|Fulvestrant(DB00947)|Letrozole(DB01006)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Melatonin(DB01065)|Mestranol(DB01357)|Naloxone(DB01183)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)|Quinestrol(DB04575)|Raloxifene(DB00481)|Tamoxifen(DB00675)|Toremifene(DB00539)	GTAAATGCTACGAAGTGGGAA	0.537													4	32					0	0	0.003080	0	0	
SYNE1	23345	broad.mit.edu	37	6	152631593	152631593	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:152631593C>T	uc010kiw.2	-	89	17559	c.16957G>A	c.(16957-16959)GCA>ACA	p.A5653T	SYNE1_uc010kiv.2_Missense_Mutation_p.A177T|SYNE1_uc003qos.3_Missense_Mutation_p.A177T|SYNE1_uc003qot.3_Missense_Mutation_p.A5582T|SYNE1_uc003qou.3_Missense_Mutation_p.A5653T	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	5653	Spectrin 18.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		GTCAGTGTTGCCTGGGCTTGC	0.433										HNSCC(10;0.0054)			6	73					0	0	0.001168	0	0	
SYNE1	23345	broad.mit.edu	37	6	152631641	152631641	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:152631641A>T	uc010kiw.2	-	89	17511	c.16909T>A	c.(16909-16911)TTT>ATT	p.F5637I	SYNE1_uc010kiv.2_Missense_Mutation_p.F161I|SYNE1_uc003qos.3_Missense_Mutation_p.F161I|SYNE1_uc003qot.3_Missense_Mutation_p.F5566I|SYNE1_uc003qou.3_Missense_Mutation_p.F5637I	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	5637	Spectrin 18.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TCTGCTTCAAATTTTTTCATA	0.428										HNSCC(10;0.0054)			13	50					0	0	0.001855	0	0	
SYNE1	23345	broad.mit.edu	37	6	152631934	152631934	+	Silent	SNP	G	A	A	rs142010074		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:152631934G>A	uc010kiw.2	-	88	17387	c.16785C>T	c.(16783-16785)AGC>AGT	p.S5595S	SYNE1_uc010kiv.2_Silent_p.S119S|SYNE1_uc003qos.3_Silent_p.S119S|SYNE1_uc003qot.3_Silent_p.S5524S|SYNE1_uc003qou.3_Silent_p.S5595S	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	5595	Spectrin 17.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TACAGTACACGCTAGTGAGGT	0.433										HNSCC(10;0.0054)			7	31					0	0	0.004482	0	0	
SYNE1	23345	broad.mit.edu	37	6	152652833	152652833	+	Silent	SNP	C	T	T	rs140361556	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:152652833C>T	uc010kiw.2	-	78	13589	c.12987G>A	c.(12985-12987)GAG>GAA	p.E4329E	SYNE1_uc003qot.3_Silent_p.E4258E|SYNE1_uc003qou.3_Silent_p.E4329E|SYNE1_uc010kiz.2_Silent_p.E84E	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	4329	Cytoplasmic (Potential).|Spectrin 12.				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TAATGAGGTCCTCAAGCTGAA	0.418										HNSCC(10;0.0054)			6	131					0	0	0.001168	0	0	
SYNE1	23345	broad.mit.edu	37	6	152746516	152746516	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:152746516C>T	uc010kiw.2	-	39	5869	c.5267G>A	c.(5266-5268)AGG>AAG	p.R1756K	SYNE1_uc003qot.3_Missense_Mutation_p.R1763K|SYNE1_uc003qou.3_Missense_Mutation_p.R1756K|SYNE1_uc010kjb.1_Missense_Mutation_p.R1739K	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	1756	Spectrin 2.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TAGAACCAACCTTTTGTTAAT	0.299										HNSCC(10;0.0054)			7	107					0	0	0.006214	0	0	
SYNE1	23345	broad.mit.edu	37	6	152841620	152841620	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:152841620C>T	uc010kiw.2	-	6	885	c.283G>A	c.(283-285)GCA>ACA	p.A95T	SYNE1_uc003qot.3_Missense_Mutation_p.A95T|SYNE1_uc003qou.3_Missense_Mutation_p.A95T|SYNE1_uc010kjb.1_Missense_Mutation_p.A95T|SYNE1_uc003qpa.1_Missense_Mutation_p.A95T	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	95	Actin-binding.|Cytoplasmic (Potential).|CH 1.				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		AACTTGAGTGCCGTGCCAATG	0.443										HNSCC(10;0.0054)			42	194					0	0	0.003610	0	0	
FBXO5	26271	broad.mit.edu	37	6	153296153	153296153	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:153296153C>T	uc003qpg.2	-	2	816	c.707G>A	c.(706-708)GGC>GAC	p.G236D	FBXO5_uc003qph.2_Missense_Mutation_p.G190D	NM_012177	NP_036309	Q9UKT4	FBX5_HUMAN	F-box only protein 5 isoform a	236	Interaction with EVI5.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitotic metaphase/anaphase transition|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle	cytosol|nucleoplasm|spindle	metal ion binding|protein binding				0		Ovarian(120;0.125)		OV - Ovarian serous cystadenocarcinoma(155;4.38e-10)|BRCA - Breast invasive adenocarcinoma(81;0.0893)		CATTTTTCTGCCAATTATATT	0.378													5	106					0	0	0.001168	0	0	
IPCEF1	26034	broad.mit.edu	37	6	154481030	154481030	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:154481030T>C	uc003qpx.2	-	12	1403	c.1247A>G	c.(1246-1248)GAC>GGC	p.D416G	OPRM1_uc003qpt.1_Intron|IPCEF1_uc003qpv.2_Missense_Mutation_p.D287G|IPCEF1_uc003qpw.2_Missense_Mutation_p.D417G|IPCEF1_uc010kjh.2_Missense_Mutation_p.D417G	NM_015553	NP_056368	Q8WWN9	ICEF1_HUMAN	phosphoinositide-binding protein PIP3-E isoform	416					response to oxidative stress	cytoplasm|plasma membrane	oxygen transporter activity|peroxidase activity				0						GTCATCAGTGTCATCAGGGGC	0.483													6	14					0	0	0.008291	0	0	
IPCEF1	26034	broad.mit.edu	37	6	154481146	154481146	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:154481146G>A	uc003qpx.2	-	12	1287	c.1131C>T	c.(1129-1131)AAC>AAT	p.N377N	OPRM1_uc003qpt.1_Intron|IPCEF1_uc003qpv.2_Silent_p.N248N|IPCEF1_uc003qpw.2_Silent_p.N378N|IPCEF1_uc010kjh.2_Silent_p.N378N	NM_015553	NP_056368	Q8WWN9	ICEF1_HUMAN	phosphoinositide-binding protein PIP3-E isoform	377					response to oxidative stress	cytoplasm|plasma membrane	oxygen transporter activity|peroxidase activity				0						CCAGCAACTGGTTAATCATGG	0.453													12	35					0	0	0.002450	0	0	
TIAM2	26230	broad.mit.edu	37	6	155469392	155469392	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:155469392G>A	uc003qqb.2	+	9	3225	c.1952G>A	c.(1951-1953)AGC>AAC	p.S651N	TIAM2_uc003qqe.2_Missense_Mutation_p.S651N|TIAM2_uc010kjj.2_Missense_Mutation_p.S184N|TIAM2_uc003qqf.2_Missense_Mutation_p.S3N|TIAM2_uc011efl.1_5'Flank|TIAM2_uc003qqg.2_5'Flank	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	651	Potential.				apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		GACATGGACAGCAAGATGAAG	0.498													16	68					0	0	0.006122	0	0	
TIAM2	26230	broad.mit.edu	37	6	155532392	155532392	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:155532392G>T	uc003qqb.2	+	17	4392	c.3119G>T	c.(3118-3120)GGC>GTC	p.G1040V	TIAM2_uc003qqe.2_Missense_Mutation_p.G1040V|TIAM2_uc010kjj.2_Missense_Mutation_p.G573V|TIAM2_uc003qqf.2_Missense_Mutation_p.G416V|TIAM2_uc011efl.1_Missense_Mutation_p.G376V|TIAM2_uc003qqg.2_Missense_Mutation_p.G352V	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	1040					apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		CAGACAGATGGCACTCTGGAT	0.453													7	55					7.48243e-07	7.94666e-07	0.006214	1	0	
TIAM2	26230	broad.mit.edu	37	6	155561791	155561791	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:155561791G>A	uc003qqb.2	+	18	4569	c.3296G>A	c.(3295-3297)CGC>CAC	p.R1099H	TIAM2_uc003qqe.2_Missense_Mutation_p.R1099H|TIAM2_uc010kjj.2_Missense_Mutation_p.R632H|TIAM2_uc003qqf.2_Missense_Mutation_p.R475H|TIAM2_uc011efl.1_Missense_Mutation_p.R435H|TIAM2_uc003qqg.2_Missense_Mutation_p.R411H|TIAM2_uc003qqh.2_Missense_Mutation_p.R24H	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	1099	DH.				apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		GATGCAGACCGCCTCCGCAAA	0.557													9	44					0	0	0.008291	0	0	
TIAM2	26230	broad.mit.edu	37	6	155577914	155577914	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:155577914G>A	uc003qqb.2	+	29	6038	c.4765G>A	c.(4765-4767)GAA>AAA	p.E1589K	TIAM2_uc003qqe.2_Missense_Mutation_p.E1589K|TIAM2_uc010kjj.2_Missense_Mutation_p.E1151K|TIAM2_uc003qqf.2_Missense_Mutation_p.E965K|TIAM2_uc011efl.1_Missense_Mutation_p.E933K|TIAM2_uc003qqg.2_Missense_Mutation_p.E901K|TIAM2_uc003qqh.2_Missense_Mutation_p.E514K|uc003qqi.1_5'Flank	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	1589					apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		TAAAGACATCGAAATTCAGTT	0.542													5	58					0	0	0.001168	0	0	
CLDN20	49861	broad.mit.edu	37	6	155596935	155596935	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:155596935C>T	uc003qql.1	+	2	462	c.82C>T	c.(82-84)CCC>TCC	p.P28S	TFB1M_uc003qqj.3_Intron|TFB1M_uc003qqk.2_Intron	NM_001001346	NP_001001346	P56880	CLD20_HUMAN	claudin 20	28	Helical; (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity				0				OV - Ovarian serous cystadenocarcinoma(155;7.82e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0114)		CACTCTGCTGCCCAACTGGAA	0.532													14	59					0	0	0.003954	0	0	
NOX3	50508	broad.mit.edu	37	6	155743924	155743924	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:155743924G>A	uc003qqm.2	-	10	1315	c.1212C>T	c.(1210-1212)TGC>TGT	p.C404C		NM_015718	NP_056533	Q9HBY0	NOX3_HUMAN	NADPH oxidase 3	404	Helical; (Potential).						electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			ovary(1)	1		Breast(66;0.0183)		OV - Ovarian serous cystadenocarcinoma(155;2.18e-12)|BRCA - Breast invasive adenocarcinoma(81;0.00815)		CCGCGGCAACGCACACACACA	0.532													25	117					0	0	0.008361	0	0	
NOX3	50508	broad.mit.edu	37	6	155761236	155761236	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:155761236G>A	uc003qqm.2	-	6	625	c.522C>T	c.(520-522)GGC>GGT	p.G174G		NM_015718	NP_056533	Q9HBY0	NOX3_HUMAN	NADPH oxidase 3	174	Ferric oxidoreductase.|Helical; (Potential).						electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			ovary(1)	1		Breast(66;0.0183)		OV - Ovarian serous cystadenocarcinoma(155;2.18e-12)|BRCA - Breast invasive adenocarcinoma(81;0.00815)		GACCGGTGACGCCTGCTATTG	0.368													16	69					0	0	0.006122	0	0	
ARID1B	57492	broad.mit.edu	37	6	157488293	157488293	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:157488293C>T	uc003qqn.2	+	9	2938	c.2786C>T	c.(2785-2787)GCG>GTG	p.A929V	ARID1B_uc003qqo.2_Missense_Mutation_p.A942V|ARID1B_uc003qqp.2_Missense_Mutation_p.A929V|ARID1B_uc010kjl.2_Missense_Mutation_p.A127V	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	987					chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		TACAGCATGGCGCCCGCCATG	0.597													13	28					0	0	0.004990	0	0	
SNX9	51429	broad.mit.edu	37	6	158330785	158330785	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:158330785G>A	uc003qqv.1	+	8	967	c.794G>A	c.(793-795)GGT>GAT	p.G265D		NM_016224	NP_057308	Q9Y5X1	SNX9_HUMAN	sorting nexin 9	265	PX.				cell communication|intracellular protein transport|lipid tube assembly|positive regulation of GTPase activity|positive regulation of protein oligomerization|receptor-mediated endocytosis	clathrin-coated vesicle|cytoplasmic vesicle membrane|extrinsic to internal side of plasma membrane|ruffle|trans-Golgi network	1-phosphatidylinositol binding|protein homodimerization activity|ubiquitin protein ligase binding				0		Breast(66;0.000776)|Ovarian(120;0.0303)|Prostate(117;0.167)		OV - Ovarian serous cystadenocarcinoma(65;8.06e-18)|BRCA - Breast invasive adenocarcinoma(81;4.48e-05)		AAAATGTATGGTCTAAAGAGC	0.413													6	120					0	0	0.001168	0	0	
SYNJ2	8871	broad.mit.edu	37	6	158517270	158517270	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:158517270C>T	uc003qqx.1	+	27	4440	c.4365C>T	c.(4363-4365)GGC>GGT	p.G1455G	SYNJ2_uc003qqy.1_Silent_p.G1168G|SYNJ2_uc003qqz.1_Silent_p.G1072G|SYNJ2_uc003qra.1_Silent_p.G798G|SYNJ2_uc010kjp.1_Silent_p.G338G	NM_003898	NP_003889	O15056	SYNJ2_HUMAN	synaptojanin 2	1455	Catalytic (By similarity).						nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(65;4.42e-18)|BRCA - Breast invasive adenocarcinoma(81;4.23e-05)		TGTCAGCTGGCGCTTCAGCTG	0.507													8	39					0	0	0.006214	0	0	
TULP4	56995	broad.mit.edu	37	6	158923299	158923299	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:158923299C>T	uc003qrf.2	+	13	3961	c.2604C>T	c.(2602-2604)GGC>GGT	p.G868G	TULP4_uc003qrg.2_Intron	NM_020245	NP_064630	Q9NRJ4	TULP4_HUMAN	tubby like protein 4 isoform 1	868					intracellular signal transduction|response to nutrient	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Breast(66;0.000781)|Ovarian(120;0.0308)|Lung SC(201;0.164)|Prostate(117;0.171)		OV - Ovarian serous cystadenocarcinoma(65;1.64e-18)|BRCA - Breast invasive adenocarcinoma(81;2.67e-05)		TGAAGAAGGGCGACTTCTCCC	0.662													13	33					0	0	0.001855	0	0	
IGF2R	3482	broad.mit.edu	37	6	160468277	160468277	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:160468277C>T	uc003qta.2	+	16	2286	c.2138C>T	c.(2137-2139)ACA>ATA	p.T713I		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	713	5.|Lumenal (Potential).				receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)		AGAGGCGGCACACCCTATAAC	0.463													10	92					0	0	0.008291	0	0	
IGF2R	3482	broad.mit.edu	37	6	160497000	160497000	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:160497000C>T	uc003qta.2	+	36	5436	c.5288C>T	c.(5287-5289)GCG>GTG	p.A1763V		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	1763	Lumenal (Potential).|12.				receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)		TCGCTCATCGCGTTTCACTGT	0.458													18	129					0	0	0.006122	0	0	
IGF2R	3482	broad.mit.edu	37	6	160523629	160523629	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:160523629C>T	uc003qta.2	+	46	7069	c.6921C>T	c.(6919-6921)GGC>GGT	p.G2307G		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	2307	Helical; (Potential).				receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)		AGGCAGTCGGCGCGGTGCTCA	0.647													4	15					0	0	0.000602	0	0	
LPA	4018	broad.mit.edu	37	6	160977182	160977182	+	Nonsense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:160977182G>T	uc003qtl.2	-	31	4968	c.4848C>A	c.(4846-4848)TGC>TGA	p.C1616*		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	4124	Kringle 37.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	TACCATGGTAGCACTGCCGGA	0.468													16	103					9.16793e-09	9.81258e-09	0.004990	1	0	
LPA	4018	broad.mit.edu	37	6	161006078	161006078	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:161006078G>A	uc003qtl.2	-	27	4409	c.4289C>T	c.(4288-4290)GCT>GTT	p.A1430V		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	3938	Kringle 35.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	ATAGACATACGCATTTGGATA	0.433													21	156					0	0	0.005443	0	0	
LPA	4018	broad.mit.edu	37	6	161020532	161020532	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:161020532G>A	uc003qtl.2	-	21	3407	c.3287C>T	c.(3286-3288)GCT>GTT	p.A1096V		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	3604	Kringle 32.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	AAAGACGTACGCATTTGGGTA	0.488													28	405					0	0	0.002836	0	0	
LPA	4018	broad.mit.edu	37	6	161026078	161026078	+	Missense_Mutation	SNP	G	A	A	rs139937718	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:161026078G>A	uc003qtl.2	-	19	3065	c.2945C>T	c.(2944-2946)GCT>GTT	p.A982V		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	3490	Kringle 31.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	ATAGACATACGCATTTGGGTA	0.448													106	317					0	0	0.003610	0	0	
PLG	5340	broad.mit.edu	37	6	161152221	161152221	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:161152221G>A	uc003qtm.3	+	11	1458	c.1395G>A	c.(1393-1395)CCG>CCA	p.P465P		NM_000301	NP_000292	P00747	PLMN_HUMAN	plasminogen	465					extracellular matrix disassembly|fibrinolysis|negative regulation of cell proliferation|negative regulation of cell-substrate adhesion|negative regulation of fibrinolysis|platelet activation|platelet degranulation|positive regulation of fibrinolysis|proteolysis|tissue remodeling	extracellular space|extrinsic to external side of plasma membrane|platelet alpha granule lumen	apolipoprotein binding|cell surface binding|serine-type endopeptidase activity			skin(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(65;5.24e-17)|BRCA - Breast invasive adenocarcinoma(81;7.08e-06)	Aminocaproic Acid(DB00513)|Streptokinase(DB00086)|Tranexamic Acid(DB00302)|Urokinase(DB00013)	TAGCACCTCCGCCTGTTGTCC	0.512													27	80					0	0	0.005443	0	0	
MAP3K4	4216	broad.mit.edu	37	6	161508846	161508846	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:161508846G>A	uc003qtn.2	+	10	2825	c.2683G>A	c.(2683-2685)GTA>ATA	p.V895I	MAP3K4_uc010kkc.1_Missense_Mutation_p.V895I|MAP3K4_uc003qto.2_Missense_Mutation_p.V895I|MAP3K4_uc011efz.1_RNA|MAP3K4_uc011ega.1_Missense_Mutation_p.V348I	NM_005922	NP_005913	Q9Y6R4	M3K4_HUMAN	mitogen-activated protein kinase kinase kinase 4	895					activation of MAPKK activity|JNK cascade|positive regulation of JUN kinase activity	perinuclear region of cytoplasm	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein binding			ovary(3)|lung(3)|skin(2)|stomach(1)	9		Breast(66;0.000776)|Ovarian(120;0.0367)|Prostate(117;0.0771)		OV - Ovarian serous cystadenocarcinoma(65;1.85e-18)|BRCA - Breast invasive adenocarcinoma(81;3.04e-05)		TTCAGATGACGTACTCATCGA	0.493													22	70					0	0	0.003954	0	0	
MAP3K4	4216	broad.mit.edu	37	6	161533750	161533750	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:161533750C>T	uc003qtn.2	+	25	4712	c.4570C>T	c.(4570-4572)CGT>TGT	p.R1524C	MAP3K4_uc003qto.2_Missense_Mutation_p.R1474C|MAP3K4_uc011efz.1_RNA|MAP3K4_uc011ega.1_Missense_Mutation_p.R977C|MAP3K4_uc003qtp.2_Missense_Mutation_p.R460C|MAP3K4_uc003qtq.2_Missense_Mutation_p.R213C	NM_005922	NP_005913	Q9Y6R4	M3K4_HUMAN	mitogen-activated protein kinase kinase kinase 4	1524	Protein kinase.				activation of MAPKK activity|JNK cascade|positive regulation of JUN kinase activity	perinuclear region of cytoplasm	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein binding			ovary(3)|lung(3)|skin(2)|stomach(1)	9		Breast(66;0.000776)|Ovarian(120;0.0367)|Prostate(117;0.0771)		OV - Ovarian serous cystadenocarcinoma(65;1.85e-18)|BRCA - Breast invasive adenocarcinoma(81;3.04e-05)		GGGCCATGGGCGTGCGGCCGA	0.522													12	67					0	0	0.001855	0	0	
AGPAT4	56895	broad.mit.edu	37	6	161574408	161574408	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:161574408C>T	uc003qtr.1	-	5	861	c.634G>A	c.(634-636)GCC>ACC	p.A212T	AGPAT4_uc003qts.1_Missense_Mutation_p.A72T|AGPAT4_uc011egb.1_Intron|AGPAT4_uc003qtt.1_RNA|AGPAT4_uc011egc.1_3'UTR|AGPAT4_uc011egd.1_3'UTR|AGPAT4_uc011ege.1_3'UTR	NM_020133	NP_064518	Q9NRZ5	PLCD_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 4	212					phospholipid biosynthetic process	integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity|protein binding				0		Breast(66;0.000289)|Ovarian(120;0.0266)|Prostate(117;0.0285)		OV - Ovarian serous cystadenocarcinoma(65;2.23e-17)|BRCA - Breast invasive adenocarcinoma(81;3.58e-05)		ACGGTGATGGCGAAGCCCTTG	0.622											OREG0017775	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	10					0	0	0.001168	0	0	
QKI	9444	broad.mit.edu	37	6	163984542	163984542	+	Missense_Mutation	SNP	G	A	A	rs142647102		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:163984542G>A	uc003qui.2	+	6	1276	c.725G>A	c.(724-726)CGT>CAT	p.R242H	QKI_uc003que.2_Missense_Mutation_p.R242H|QKI_uc003quf.2_Missense_Mutation_p.R242H|QKI_uc003qug.2_Missense_Mutation_p.R242H|QKI_uc003quh.2_Missense_Mutation_p.R234H|QKI_uc003quj.2_Missense_Mutation_p.R234H	NM_006775	NP_006766	Q96PU8	QKI_HUMAN	quaking homolog, KH domain RNA binding isoform	242					mRNA processing|mRNA transport|regulation of translation|RNA splicing	cytoplasm|nucleus|plasma membrane	RNA binding|SH3 domain binding			large_intestine(1)|ovary(1)	2		Breast(66;5e-05)|Prostate(117;0.0235)|all_neural(5;0.0416)|Ovarian(120;0.0448)|Glioma(2;0.203)		all cancers(1;4.4e-46)|OV - Ovarian serous cystadenocarcinoma(33;6.91e-23)|GBM - Glioblastoma multiforme(1;2.94e-19)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|Kidney(3;0.000199)|KIRC - Kidney renal clear cell carcinoma(3;0.000234)		GCTGCCCTGCGTACTCCTACG	0.552													12	54					0	0	0.000978	0	0	
C6orf118	168090	broad.mit.edu	37	6	165715311	165715311	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:165715311C>T	uc003qum.3	-	2	536	c.500G>A	c.(499-501)GGC>GAC	p.G167D	C6orf118_uc011egi.1_RNA	NM_144980	NP_659417	Q5T5N4	CF118_HUMAN	hypothetical protein LOC168090	167											0		Breast(66;6.27e-05)|Ovarian(120;0.0228)|Prostate(117;0.0906)|all_neural(5;0.157)		OV - Ovarian serous cystadenocarcinoma(33;3.23e-18)|BRCA - Breast invasive adenocarcinoma(81;3.11e-06)|GBM - Glioblastoma multiforme(31;0.000313)		TCCAGGAGGGCCCCGTCCAGG	0.632													5	28					0	0	0.001168	0	0	
FGFR1OP	11116	broad.mit.edu	37	6	167436102	167436102	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:167436102A>G	uc003qvj.2	+	8	870	c.785A>G	c.(784-786)AAG>AGG	p.K262R	CCR6_uc003qvl.2_5'UTR|FGFR1OP_uc011egp.1_Missense_Mutation_p.K215R|FGFR1OP_uc003qvk.2_Missense_Mutation_p.K242R	NM_007045	NP_008976	O95684	FR1OP_HUMAN	FGFR1 oncogene partner isoform a	262					G2/M transition of mitotic cell cycle|microtubule anchoring|positive regulation of cell growth|positive regulation of cell migration|positive regulation of cell proliferation	centrosome|cytosol|nucleus|perinuclear region of cytoplasm	protein homodimerization activity|protein kinase binding|protein tyrosine kinase inhibitor activity			ovary(1)	1		Breast(66;1.48e-05)|Ovarian(120;0.0607)		OV - Ovarian serous cystadenocarcinoma(33;1.73e-19)|BRCA - Breast invasive adenocarcinoma(81;5.1e-06)|GBM - Glioblastoma multiforme(31;0.00231)		CCCATTCCTAAGCCAGAGAAA	0.333			T	FGFR1	MPD|NHL								18	65					0	0	0.008871	0	0	
UNC93A	54346	broad.mit.edu	37	6	167728837	167728837	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:167728837C>T	uc003qvq.2	+	8	1446	c.1271C>T	c.(1270-1272)GCG>GTG	p.A424V	UNC93A_uc003qvr.2_Missense_Mutation_p.A382V	NM_018974	NP_061847	Q86WB7	UN93A_HUMAN	unc-93 homolog A isoform 1	424						integral to membrane|plasma membrane					0		Breast(66;7.62e-05)|Ovarian(120;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)		ACCATGGTGGCGTATGGGCTT	0.552													38	250					0	0	0.003610	0	0	
MLLT4	4301	broad.mit.edu	37	6	168281118	168281118	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:168281118C>A	uc003qwd.2	+	6	957	c.815C>A	c.(814-816)CCT>CAT	p.P272H	MLLT4_uc003qwb.1_Missense_Mutation_p.P272H|MLLT4_uc003qwc.1_Missense_Mutation_p.P273H|MLLT4_uc003qwf.2_Translation_Start_Site	NM_001040001	NP_001035090	P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	273	Ras-associating 2.				adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)		ACTACAGATCCTGCAGACTTT	0.388			T	MLL	AL								58	176					1.17253e-29	1.28771e-29	0.003610	1	0	
MLLT4	4301	broad.mit.edu	37	6	168312071	168312071	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:168312071T>C	uc003qwd.2	+	15	2078	c.1936T>C	c.(1936-1938)TCC>CCC	p.S646P	MLLT4_uc003qwb.1_Missense_Mutation_p.S631P|MLLT4_uc003qwc.1_Missense_Mutation_p.S647P|MLLT4_uc003qwf.2_Missense_Mutation_p.S332P|MLLT4_uc003qwg.1_5'Flank	NM_001040001	NP_001035090	P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	647					adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)		GTATGTATTGTCCAACCAGTA	0.418			T	MLL	AL								24	93					0	0	0.003330	0	0	
MLLT4	4301	broad.mit.edu	37	6	168344088	168344088	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:168344088C>T	uc003qwd.2	+	24	3290	c.3148C>T	c.(3148-3150)CGT>TGT	p.R1050C	MLLT4_uc003qwb.1_Missense_Mutation_p.R1035C|MLLT4_uc003qwc.1_Missense_Mutation_p.R1051C|MLLT4_uc003qwg.1_Missense_Mutation_p.R360C	NM_001040001	NP_001035090	P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1051	PDZ.				adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)		CTAGGATGGACGTCTAGCTGC	0.453			T	MLL	AL								8	157					0	0	0.006214	0	0	
MLLT4	4301	broad.mit.edu	37	6	168352728	168352728	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:168352728G>A	uc003qwd.2	+	29	4812	c.4670G>A	c.(4669-4671)CGC>CAC	p.R1557H	MLLT4_uc003qwb.1_Missense_Mutation_p.R1542H|MLLT4_uc003qwc.1_Missense_Mutation_p.R1558H|MLLT4_uc003qwg.1_Missense_Mutation_p.R867H	NM_001040001	NP_001035090	P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1558	Potential.				adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)		GACCGGCTGCGCAAGCTCATG	0.443			T	MLL	AL								7	17					0	0	0.006214	0	0	
DLL1	28514	broad.mit.edu	37	6	170592454	170592454	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:170592454G>A	uc003qxm.2	-	9	2383	c.1913C>T	c.(1912-1914)GCG>GTG	p.A638V		NM_005618	NP_005609	O00548	DLL1_HUMAN	delta-like 1 precursor	638	Cytoplasmic (Potential).				cell communication|cell fate determination|hemopoiesis|Notch receptor processing|Notch signaling pathway|regulation of cell adhesion	extracellular region|integral to plasma membrane	calcium ion binding|Notch binding			lung(4)|ovary(1)	5		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;6.71e-23)|BRCA - Breast invasive adenocarcinoma(81;4.81e-06)|GBM - Glioblastoma multiforme(31;0.0584)		ATAGTCCACCGCTGGGTAGCG	0.622													9	49					0	0	0.002450	0	0	
FAM120B	84498	broad.mit.edu	37	6	170627136	170627136	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr6:170627136G>A	uc003qxp.2	+	2	766	c.658G>A	c.(658-660)GCC>ACC	p.A220T	FAM120B_uc003qxo.1_Missense_Mutation_p.A220T|FAM120B_uc011ehd.1_Intron	NM_032448	NP_115824	Q96EK7	F120B_HUMAN	family with sequence similarity 120B	220					cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			ovary(1)	1		Breast(66;0.000338)|Esophageal squamous(34;0.241)		OV - Ovarian serous cystadenocarcinoma(33;3.94e-22)|BRCA - Breast invasive adenocarcinoma(81;6.47e-06)|GBM - Glioblastoma multiforme(31;0.0899)		CCTCTGTGTGGCCGACCTTCC	0.522													25	56					0	0	0.002780	0	0	
HEATR2	54919	broad.mit.edu	37	7	796464	796464	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:796464G>A	uc010krz.1	+	6	1323	c.1303G>A	c.(1303-1305)GTG>ATG	p.V435M	HEATR2_uc003siz.2_Missense_Mutation_p.V303M	NM_017802	NP_060272	Q86Y56	HEAT2_HUMAN	HEAT repeat containing 2	435							protein binding			skin(1)	1		Ovarian(82;0.0112)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0182)|Epithelial(4;5.48e-17)|OV - Ovarian serous cystadenocarcinoma(56;1.95e-16)|all cancers(6;2.98e-14)		CAGCCCTGAGGTGTTTCTGAA	0.602													23	89					0	0	0.001882	0	0	
HEATR2	54919	broad.mit.edu	37	7	803547	803547	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:803547G>A	uc010krz.1	+	8	1739	c.1719G>A	c.(1717-1719)TCG>TCA	p.S573S	HEATR2_uc003siz.2_Silent_p.S441S|HEATR2_uc003sja.2_Silent_p.S31S	NM_017802	NP_060272	Q86Y56	HEAT2_HUMAN	HEAT repeat containing 2	573							protein binding			skin(1)	1		Ovarian(82;0.0112)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0182)|Epithelial(4;5.48e-17)|OV - Ovarian serous cystadenocarcinoma(56;1.95e-16)|all cancers(6;2.98e-14)		TGACCGCGTCGCACCTTGACT	0.652													8	60					0	0	0.003080	0	0	
HEATR2	54919	broad.mit.edu	37	7	825235	825235	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:825235C>T	uc010krz.1	+	13	2533	c.2513C>T	c.(2512-2514)GCC>GTC	p.A838V	HEATR2_uc003siz.2_Missense_Mutation_p.A706V|HEATR2_uc003sjb.2_Missense_Mutation_p.A218V|HEATR2_uc003sjc.2_Missense_Mutation_p.A263V	NM_017802	NP_060272	Q86Y56	HEAT2_HUMAN	HEAT repeat containing 2	838							protein binding			skin(1)	1		Ovarian(82;0.0112)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0182)|Epithelial(4;5.48e-17)|OV - Ovarian serous cystadenocarcinoma(56;1.95e-16)|all cancers(6;2.98e-14)		CACCGCTCGGCCACCTACTGC	0.617													6	17					0	0	0.004482	0	0	
INTS1	26173	broad.mit.edu	37	7	1538054	1538054	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:1538054C>T	uc003skn.2	-	10	1520	c.1419G>A	c.(1417-1419)GCG>GCA	p.A473A	INTS1_uc003skq.2_Silent_p.A473A	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	473					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		CTACCTTGGGCGCCAGCTCTG	0.642													4	18					0	0	0.000602	0	0	
MAD1L1	8379	broad.mit.edu	37	7	1997289	1997289	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:1997289G>A	uc003slh.1	-	16	1837	c.1571C>T	c.(1570-1572)GCA>GTA	p.A524V	MAD1L1_uc003sle.1_Missense_Mutation_p.A253V|MAD1L1_uc003slf.1_Missense_Mutation_p.A524V|MAD1L1_uc003slg.1_Missense_Mutation_p.A524V|MAD1L1_uc010ksh.1_Missense_Mutation_p.A524V|MAD1L1_uc003sli.1_Missense_Mutation_p.A432V|MAD1L1_uc010ksi.1_Missense_Mutation_p.A477V|MAD1L1_uc010ksj.2_Missense_Mutation_p.A524V	NM_001013836	NP_001013858	Q9Y6D9	MD1L1_HUMAN	MAD1-like 1 protein	524	Necessary for interaction with NEK2.|Potential.				cell division|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase|mitotic prometaphase|mitotic telophase	actin cytoskeleton|centrosome|condensed chromosome kinetochore|cytosol|mitochondrion|nucleus|spindle	protein binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0272)		UCEC - Uterine corpus endometrioid carcinoma (27;0.134)|OV - Ovarian serous cystadenocarcinoma(56;3.63e-14)		CTCCAGCTGTGCCTCCAGCAT	0.637													9	25					0	0	0.004482	0	0	
TTYH3	80727	broad.mit.edu	37	7	2698584	2698584	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:2698584G>A	uc003smp.2	+	13	1622	c.1435G>A	c.(1435-1437)GCT>ACT	p.A479T	TTYH3_uc010ksn.2_Missense_Mutation_p.A199T|TTYH3_uc003smq.2_Missense_Mutation_p.A308T	NM_025250	NP_079526	Q9C0H2	TTYH3_HUMAN	tweety 3	479	Cytoplasmic (Potential).					chloride channel complex|plasma membrane	chloride channel activity				0		Ovarian(82;0.0112)		OV - Ovarian serous cystadenocarcinoma(56;2.04e-14)		GAGCCAGAACGCTAATTTCCA	0.662													29	70					0	0	0.004289	0	0	
AMZ1	155185	broad.mit.edu	37	7	2740354	2740354	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:2740354G>A	uc003smr.1	+	2	630	c.269G>A	c.(268-270)CGC>CAC	p.R90H	AMZ1_uc003sms.1_Missense_Mutation_p.R90H|AMZ1_uc011jwa.1_5'Flank	NM_133463	NP_597720	Q400G9	AMZ1_HUMAN	archaelysin family metallopeptidase 1	90							metallopeptidase activity|zinc ion binding				0		Ovarian(82;0.0779)		OV - Ovarian serous cystadenocarcinoma(56;5.03e-14)		CGGAAGCCCCGCCTGGCTCGG	0.647													6	12					0	0	0.004482	0	0	
CARD11	84433	broad.mit.edu	37	7	2963993	2963993	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:2963993C>T	uc003smv.2	-	15	2218	c.1814G>A	c.(1813-1815)AGT>AAT	p.S605N		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	605					positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity			haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|skin(2)|central_nervous_system(1)	50		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)		GCGTTCGTGACTGTCATCTGC	0.657			Mis		DLBCL								5	23					0	0	0.001984	0	0	
SDK1	221935	broad.mit.edu	37	7	3991379	3991379	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:3991379G>T	uc003smx.2	+	7	1116	c.977G>T	c.(976-978)AGT>ATT	p.S326I		NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	326	Ig-like C2-type 3.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		GAGGACCTGAGTGTGACCTGG	0.587													8	36					1.26484e-09	1.35768e-09	0.003080	1	0	
FOXK1	221937	broad.mit.edu	37	7	4796712	4796712	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:4796712C>T	uc003snc.1	+	5	1148	c.1138C>T	c.(1138-1140)CGA>TGA	p.R380*	FOXK1_uc003sna.1_Nonsense_Mutation_p.R217*	NM_001037165	NP_001032242	P85037	FOXK1_HUMAN	forkhead box K1	380	Fork-head.				cell differentiation|embryo development|muscle organ development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|magnesium ion binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			upper_aerodigestive_tract(1)|skin(1)	2		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)|OV - Ovarian serous cystadenocarcinoma(56;7.43e-15)		GTCCTTTTGGCGAATAGACCC	0.572													6	83					0	0	0.001168	0	0	
RADIL	55698	broad.mit.edu	37	7	4871777	4871777	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:4871777C>T	uc003snj.1	-	5	1622	c.1449G>A	c.(1447-1449)GCG>GCA	p.A483A	RADIL_uc003sng.1_RNA|RADIL_uc003sni.1_5'UTR|RADIL_uc011jwc.1_Silent_p.A243A|RADIL_uc011jwd.1_RNA	NM_018059	NP_060529	Q96JH8	RADIL_HUMAN	Rap GTPase interactor	483					cell adhesion|multicellular organismal development|signal transduction		protein binding			lung(2)|central_nervous_system(2)|pancreas(2)|breast(1)	7		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0986)|OV - Ovarian serous cystadenocarcinoma(56;7.41e-15)		CTCACAGTTGCGCCTGCTTCT	0.557													4	11					0	0	0.009096	0	0	
RBAK	57786	broad.mit.edu	37	7	5097398	5097398	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:5097398C>T	uc010kss.1	+	5	550	c.226C>T	c.(226-228)CAA>TAA	p.Q76*	LOC389458_uc003snr.2_Nonsense_Mutation_p.Q76*|RBAK_uc003sns.1_Nonsense_Mutation_p.Q76*	NM_021163	NP_066986	Q9NYW8	RBAK_HUMAN	RB-associated KRAB repressor	76	KRAB.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(3)|kidney(1)|skin(1)	5		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0916)|OV - Ovarian serous cystadenocarcinoma(56;2.44e-14)		ATTTCCATGTCAACATAGTCC	0.418													25	80					0	0	0.006320	0	0	
SLC29A4	222962	broad.mit.edu	37	7	5331433	5331433	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:5331433C>T	uc003sod.2	+	5	686	c.525C>T	c.(523-525)ACC>ACT	p.T175T	SLC29A4_uc011jwg.1_RNA|SLC29A4_uc003soc.2_Silent_p.T175T|SLC29A4_uc003soe.2_Missense_Mutation_p.P163L	NM_153247	NP_694979	Q7RTT9	S29A4_HUMAN	solute carrier family 29 (nucleoside	175	Helical; (Potential).				nucleobase, nucleoside and nucleotide metabolic process	apical plasma membrane|integral to membrane	nucleoside transmembrane transporter activity			liver(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0903)|OV - Ovarian serous cystadenocarcinoma(56;2.65e-15)		CTGTGGGCACCGTGGCCTTCG	0.652													15	20					0	0	0.006122	0	0	
FBXL18	80028	broad.mit.edu	37	7	5541130	5541130	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:5541130C>T	uc003soo.2	-	3	864	c.770G>A	c.(769-771)CGC>CAC	p.R257H	FBXL18_uc003son.3_Missense_Mutation_p.R257H	NM_024963	NP_079239	Q96ME1	FXL18_HUMAN	F-box and leucine-rich repeat protein 18	257										central_nervous_system(2)|ovary(1)	3		Ovarian(82;0.0607)		UCEC - Uterine corpus endometrioid carcinoma (126;0.181)|OV - Ovarian serous cystadenocarcinoma(56;3.64e-13)		CTGAGGAGTGCGGTCGCTAAG	0.647													8	14					0	0	0.003080	0	0	
ACTB	60	broad.mit.edu	37	7	5568056	5568056	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:5568056C>T	uc003sos.3	-	3	694	c.658G>A	c.(658-660)GCC>ACC	p.A220T	ACTB_uc003sor.3_Missense_Mutation_p.A98T|ACTB_uc003sot.3_Missense_Mutation_p.A220T|ACTB_uc003soq.3_Missense_Mutation_p.A98T|ACTB_uc010ksy.2_Missense_Mutation_p.A98T	NM_001101	NP_001092	P60709	ACTB_HUMAN	beta actin	220					'de novo' posttranslational protein folding|adherens junction organization|axon guidance|blood coagulation|cell junction assembly|cellular component movement	cytoskeleton|cytosol|MLL5-L complex|NuA4 histone acetyltransferase complex|ribonucleoprotein complex	ATP binding|kinesin binding|nitric-oxide synthase binding|structural constituent of cytoskeleton				0		Ovarian(82;0.0606)		UCEC - Uterine corpus endometrioid carcinoma (126;0.175)|OV - Ovarian serous cystadenocarcinoma(56;4.24e-37)		AAGTCCAGGGCGACGTAGCAC	0.587													25	67					0	0	0.002445	0	0	
ACTB	60	broad.mit.edu	37	7	5568123	5568123	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:5568123G>T	uc003sos.3	-	3	627	c.591C>A	c.(589-591)GGC>GGA	p.G197G	ACTB_uc003sor.3_Silent_p.G75G|ACTB_uc003sot.3_Silent_p.G197G|ACTB_uc003soq.3_Silent_p.G75G|ACTB_uc010ksy.2_Silent_p.G75G	NM_001101	NP_001092	P60709	ACTB_HUMAN	beta actin	197					'de novo' posttranslational protein folding|adherens junction organization|axon guidance|blood coagulation|cell junction assembly|cellular component movement	cytoskeleton|cytosol|MLL5-L complex|NuA4 histone acetyltransferase complex|ribonucleoprotein complex	ATP binding|kinesin binding|nitric-oxide synthase binding|structural constituent of cytoskeleton				0		Ovarian(82;0.0606)		UCEC - Uterine corpus endometrioid carcinoma (126;0.175)|OV - Ovarian serous cystadenocarcinoma(56;4.24e-37)		TGAAGCTGTAGCCGCGCTCGG	0.617													17	57					1.9806e-07	2.11035e-07	0.002299	1	0	
RNF216	54476	broad.mit.edu	37	7	5792588	5792588	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:5792588C>T	uc003soy.1	-	3	280	c.90G>A	c.(88-90)GGG>GGA	p.G30G	RNF216_uc010ksz.1_5'UTR|RNF216_uc010kta.1_5'UTR|RNF216_uc011jwj.1_Intron|RNF216_uc003sox.1_Silent_p.G30G	NM_207116	NP_996999	Q9NWF9	RN216_HUMAN	ring finger protein 216 isoform b	30					apoptosis|interspecies interaction between organisms|proteasomal ubiquitin-dependent protein catabolic process|protein K48-linked ubiquitination|regulation of defense response to virus by host|regulation of interferon-beta production	cytoplasm|nucleus|nucleus	ligase activity|protein binding|protein binding|zinc ion binding			ovary(3)|breast(2)	5		Ovarian(82;0.07)		UCEC - Uterine corpus endometrioid carcinoma (126;0.135)|OV - Ovarian serous cystadenocarcinoma(56;2.69e-13)		TGGTGATGGGCCCATCTCGGA	0.493													11	45					0	0	0.000978	0	0	
RSPH10B2	728194	broad.mit.edu	37	7	6836263	6836263	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:6836263C>T	uc011jxc.1	+	11	1434	c.1163C>T	c.(1162-1164)ACG>ATG	p.T388M	RSPH10B2_uc003sqw.1_Silent_p.Y766Y|RSPH10B2_uc010ktk.1_Silent_p.Y766Y|RSPH10B2_uc010ktl.1_RNA			B2RC85	R10B2_HUMAN	SubName: Full=cDNA FLJ54347;	Error:Variant_position_missing_in_B2RC85_after_alignment										ovary(1)|pancreas(1)|skin(1)	3						ATAATACGTACGTCTTCTTTG	0.438													21	294					0	0	0.008871	0	0	
MIOS	54468	broad.mit.edu	37	7	7636049	7636049	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:7636049G>A	uc003srf.2	+	11	2666	c.2358G>A	c.(2356-2358)GCG>GCA	p.A786A	MIOS_uc003srg.2_Silent_p.A321A|MIOS_uc010ktq.2_Silent_p.A181A	NM_019005	NP_061878	Q9NXC5	MIO_HUMAN	missing oocyte, meiosis regulator, homolog	786											0						CTCGATGTGCGCTTTGTCTCA	0.393													10	146					0	0	0.000978	0	0	
THSD7A	221981	broad.mit.edu	37	7	11464343	11464343	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:11464343G>A	uc003ssf.3	-	15	3615	c.3363C>T	c.(3361-3363)GGC>GGT	p.G1121G		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	1121	TSP type-1 11.|Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		GGGTTTGCACGCCCTCTCCAC	0.483										HNSCC(18;0.044)			42	208					0	0	0.002852	0	0	
TMEM106B	54664	broad.mit.edu	37	7	12263863	12263863	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:12263863T>C	uc011jxk.1	+	5	693	c.293T>C	c.(292-294)GTG>GCG	p.V98A	TMEM106B_uc003ssh.2_Missense_Mutation_p.V98A	NM_018374	NP_060844	Q9NUM4	T106B_HUMAN	transmembrane protein 106B	98	Helical; (Potential).					integral to membrane					0				UCEC - Uterine corpus endometrioid carcinoma (126;0.185)		AAGCTGTATGTGATGGCTTCT	0.383													12	212					0	0	0.004990	0	0	
ARL4A	10124	broad.mit.edu	37	7	12727924	12727924	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:12727924G>A	uc003ssp.2	+	2	322	c.45G>A	c.(43-45)CTG>CTA	p.L15L	ARL4A_uc003ssq.2_Silent_p.L15L|ARL4A_uc003ssr.2_Silent_p.L15L|ARL4A_uc003sss.2_Silent_p.L15L	NM_001037164	NP_001032241	P40617	ARL4A_HUMAN	ADP-ribosylation factor-like 4A	15					small GTPase mediated signal transduction	cytoplasm|nucleolus|plasma membrane	GTP binding|protein binding				0				UCEC - Uterine corpus endometrioid carcinoma (126;0.176)		TGTCCAACCTGCCTTCATTTC	0.413													51	86					0	0	0.003610	0	0	
ARL4A	10124	broad.mit.edu	37	7	12728427	12728427	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:12728427A>G	uc003ssp.2	+	2	825	c.548A>G	c.(547-549)CAT>CGT	p.H183R	ARL4A_uc003ssq.2_Missense_Mutation_p.H183R|ARL4A_uc003ssr.2_Missense_Mutation_p.H183R|ARL4A_uc003sss.2_Missense_Mutation_p.H183R	NM_001037164	NP_001032241	P40617	ARL4A_HUMAN	ADP-ribosylation factor-like 4A	183					small GTPase mediated signal transduction	cytoplasm|nucleolus|plasma membrane	GTP binding|protein binding				0				UCEC - Uterine corpus endometrioid carcinoma (126;0.176)		GAGAAACTACATGATATGATC	0.388													31	85					0	0	0.002445	0	0	
ETV1	2115	broad.mit.edu	37	7	13971341	13971341	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:13971341G>T	uc011jxq.1	-	9	1327	c.588C>A	c.(586-588)TCC>TCA	p.S196S	ETV1_uc011jxn.1_Silent_p.S156S|ETV1_uc011jxo.1_Silent_p.S93S|ETV1_uc011jxp.1_Silent_p.S138S|ETV1_uc003ssw.3_Silent_p.S196S|ETV1_uc003ssx.2_RNA|ETV1_uc011jxr.1_Silent_p.S178S|ETV1_uc011jxs.1_Silent_p.S178S|ETV1_uc010ktv.2_Silent_p.S65S	NM_004956	NP_004947	P50549	ETV1_HUMAN	ets variant gene 1 isoform a	196					transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		TMPRSS2/ETV1(24)|EWSR1/ETV1(7)	prostate(24)|soft_tissue(4)|bone(3)|lung(2)|central_nervous_system(1)|ovary(1)	35						AAGGAGGAAAGGAGTTACAGG	0.483			T	EWSR1|TMPRSS2|SLC45A3|C15orf21|HNRNPA2B1. ACSL3	Ewing sarcoma|prostate								6	50					2.0095e-06	2.12941e-06	0.001984	1	0	
DGKB	1607	broad.mit.edu	37	7	14653016	14653016	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:14653016T>A	uc003ssz.2	-	15	1497	c.1310A>T	c.(1309-1311)CAC>CTC	p.H437L	DGKB_uc011jxt.1_Missense_Mutation_p.H418L|DGKB_uc003sta.2_Missense_Mutation_p.H437L|DGKB_uc011jxu.1_Missense_Mutation_p.H436L	NM_004080	NP_004071	Q9Y6T7	DGKB_HUMAN	diacylglycerol kinase, beta isoform 1	437	DAGKc.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	cytoplasm|plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity|protein binding			lung(5)|ovary(4)|breast(2)|skin(1)	12					Phosphatidylserine(DB00144)	TAAAAGTGGGTGAGTACCAGG	0.323													3	12					0	0	0.004672	0	0	
DGKB	1607	broad.mit.edu	37	7	14758253	14758253	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:14758253G>A	uc003ssz.2	-	5	567	c.380C>T	c.(379-381)ACG>ATG	p.T127M	DGKB_uc011jxt.1_Missense_Mutation_p.T120M|DGKB_uc003sta.2_Missense_Mutation_p.T127M|DGKB_uc011jxu.1_Missense_Mutation_p.T127M|DGKB_uc011jxv.1_Missense_Mutation_p.T127M	NM_004080	NP_004071	Q9Y6T7	DGKB_HUMAN	diacylglycerol kinase, beta isoform 1	127					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	cytoplasm|plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity|protein binding			lung(5)|ovary(4)|breast(2)|skin(1)	12					Phosphatidylserine(DB00144)	TGGGGAACACGTATTTGCAGG	0.403													22	48					0	0	0.005443	0	0	
TMEM195	392636	broad.mit.edu	37	7	15240962	15240962	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:15240962G>A	uc003stb.1	-	13	1456	c.1286C>T	c.(1285-1287)GCT>GTT	p.A429V		NM_001004320	NP_001004320	Q6ZNB7	ALKMO_HUMAN	transmembrane protein 195	429	Helical; (Potential).				ether lipid metabolic process|fatty acid biosynthetic process|membrane lipid metabolic process	endoplasmic reticulum membrane|integral to membrane	glyceryl-ether monooxygenase activity|iron ion binding				0						TCCCCAGAAAGCAATGCAAAT	0.318													17	47					0	0	0.006122	0	0	
FERD3L	222894	broad.mit.edu	37	7	19184742	19184742	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:19184742G>A	uc003suo.1	-	1	303	c.244C>T	c.(244-246)CGC>TGC	p.R82C	uc003sun.1_RNA	NM_152898	NP_690862	Q96RJ6	FER3L_HUMAN	nephew of atonal 3	82					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			large_intestine(1)	1						cctcttccgcgctcctcttcc	0.358													8	18					0	0	0.006214	0	0	
MACC1	346389	broad.mit.edu	37	7	20199427	20199427	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:20199427C>T	uc003sus.3	-	5	866	c.557G>A	c.(556-558)CGC>CAC	p.R186H	MACC1_uc010kug.2_Missense_Mutation_p.R186H	NM_182762	NP_877439	Q6ZN28	MACC1_HUMAN	putative binding protein 7a5	186					positive regulation of cell division|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	growth factor activity			ovary(2)|skin(1)	3						GGCCAGCTGGCGTTGACTTAA	0.478													6	31					0	0	0.001168	0	0	
DNAH11	8701	broad.mit.edu	37	7	21627789	21627789	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:21627789T>C	uc003svc.2	+	10	1849	c.1818T>C	c.(1816-1818)TGT>TGC	p.C606C		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	606	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						TGGATGTGTGTAAGCAACTGT	0.373									Kartagener_syndrome				14	62					0	0	0.004007	0	0	
DNAH11	8701	broad.mit.edu	37	7	21631027	21631027	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:21631027C>T	uc003svc.2	+	14	2530	c.2499C>T	c.(2497-2499)AAC>AAT	p.N833N		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	833	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						CACAGAAAAACGTGAAGGTGA	0.602									Kartagener_syndrome				5	34					0	0	0.000602	0	0	
CDCA7L	55536	broad.mit.edu	37	7	21943869	21943869	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:21943869C>T	uc010kuk.2	-	8	1176	c.1056G>A	c.(1054-1056)ACG>ACA	p.T352T	CDCA7L_uc003sve.3_Silent_p.T318T|CDCA7L_uc010kul.2_Silent_p.T306T|CDCA7L_uc003svf.3_Silent_p.T351T	NM_018719	NP_061189	Q96GN5	CDA7L_HUMAN	cell division cycle associated 7-like isoform 1	352					positive regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus					0						ACTGATGGCACGTGTTACCCT	0.537													12	31					0	0	0.001368	0	0	
CLK2P	1197	broad.mit.edu	37	7	23625243	23625243	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:23625243C>T	uc003swk.2	-	1	904	c.254G>A	c.(253-255)CGA>CAA	p.R85Q		NR_002711				SubName: Full=cDNA FLJ61616, highly similar to Dual specificity protein kinase CLK2 (EC 2.7.12.1); SubName: Full=CDC-like kinase 2, isoform CRA_c; SubName: Full=Putative uncharacterized protein CLK2;												0						GCGCTCATGTCGCTTCTTCTC	0.488													7	104					0	0	0.001984	0	0	
C7orf46	340277	broad.mit.edu	37	7	23731194	23731194	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:23731194C>T	uc003swo.3	+	4	705	c.616C>T	c.(616-618)CGG>TGG	p.R206W	C7orf46_uc003swq.3_Missense_Mutation_p.R206W|C7orf46_uc003swr.3_Missense_Mutation_p.R148W|C7orf46_uc003swp.3_RNA|C7orf46_uc010kup.2_RNA	NM_199136	NP_954587	A4D161	CG046_HUMAN	hypothetical protein LOC340277 isoform 1	206											0						AGGCTACATGCGGTTAGATGA	0.428													9	90					0	0	0.000978	0	0	
DFNA5	1687	broad.mit.edu	37	7	24789387	24789387	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:24789387C>T	uc010kus.1	-	2	95	c.7G>A	c.(7-9)GCC>ACC	p.A3T	DFNA5_uc003swz.2_Intron|DFNA5_uc003sxa.1_Missense_Mutation_p.A3T|DFNA5_uc010kut.1_Intron|DFNA5_uc003sxb.2_Missense_Mutation_p.A3T|DFNA5_uc003sxc.2_Missense_Mutation_p.A3T	NM_001127453	NP_001120925	O60443	DFNA5_HUMAN	deafness, autosomal dominant 5 protein isoform	3					sensory perception of sound					ovary(1)	1						GTTGCTTTGGCAAACATTTTG	0.328													8	105					0	0	0.003080	0	0	
OSBPL3	26031	broad.mit.edu	37	7	24839866	24839866	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:24839866C>T	uc003sxf.2	-	23	3005	c.2600G>A	c.(2599-2601)GGC>GAC	p.G867D	OSBPL3_uc003sxd.2_RNA|OSBPL3_uc003sxe.2_RNA|OSBPL3_uc003sxg.2_Missense_Mutation_p.G831D|OSBPL3_uc003sxh.2_Missense_Mutation_p.G836D|OSBPL3_uc003sxi.2_Missense_Mutation_p.G800D	NM_015550	NP_056365	Q9H4L5	OSBL3_HUMAN	oxysterol-binding protein-like protein 3 isoform	867					lipid transport		lipid binding|protein binding			skin(1)	1						CAAATAGGTGCCGTTGCTCAC	0.388													7	27					0	0	0.003080	0	0	
HOXA1	3198	broad.mit.edu	37	7	27134298	27134298	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:27134298C>T	uc003sye.2	-	2	863	c.769G>A	c.(769-771)GCC>ACC	p.A257T	HOXA1_uc003syd.2_3'UTR|uc003syg.2_5'Flank	NM_005522	NP_005513	P49639	HXA1_HUMAN	homeobox A1 isoform a	257	Homeobox.					nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)	3						ACCCTGCGGGCGCGCGTCAGG	0.567													17	71					0	0	0.007413	0	0	
HOXA1	3198	broad.mit.edu	37	7	27135154	27135154	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:27135154G>A	uc003sye.2	-	1	472	c.378C>T	c.(376-378)TGC>TGT	p.C126C	HOXA1_uc003syd.2_Intron|uc003syg.2_5'Flank	NM_005522	NP_005513	P49639	HXA1_HUMAN	homeobox A1 isoform a	126						nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)	3						CAGCGGGAGCGCACTGGGGGT	0.567													17	52					0	0	0.010504	0	0	
HOXA6	3203	broad.mit.edu	37	7	27185359	27185359	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:27185359C>T	uc003syo.1	-	2	620	c.620G>A	c.(619-621)CGC>CAC	p.R207H	HOXA5_uc003syn.1_5'Flank|uc003syp.1_5'Flank	NM_024014	NP_076919	P31267	HXA6_HUMAN	homeobox A6	207	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2						CCACTTCATGCGGCGGTTCTG	0.602													22	58					0	0	0.004289	0	0	
NEUROD6	63974	broad.mit.edu	37	7	31378581	31378581	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:31378581G>A	uc003tch.2	-	2	655	c.302C>T	c.(301-303)GCG>GTG	p.A101V		NM_022728	NP_073565	Q96NK8	NDF6_HUMAN	neurogenic differentiation 6	101	Basic motif.				cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)	2						CCTCTCGCGCGCGTTCGCTTC	0.463													34	114					0	0	0.004878	0	0	
CCDC129	223075	broad.mit.edu	37	7	31592727	31592727	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:31592727C>T	uc003tcj.1	+	2	1082	c.89C>T	c.(88-90)GCG>GTG	p.A30V	CCDC129_uc011kad.1_Missense_Mutation_p.A40V|CCDC129_uc003tci.1_Missense_Mutation_p.A29V|CCDC129_uc011kae.1_Missense_Mutation_p.A56V|CCDC129_uc003tck.1_5'Flank	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	30											0						ACCAAAAGCGCGTGGGCTCCG	0.537													6	15					0	0	0.004482	0	0	
BMPER	168667	broad.mit.edu	37	7	33945297	33945297	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:33945297C>T	uc011kap.1	+	1	186	c.72C>T	c.(70-72)TGC>TGT	p.C24C		NM_133468	NP_597725	Q8N8U9	BMPER_HUMAN	BMP-binding endothelial regulator precursor	24					blood vessel endothelial cell proliferation involved in sprouting angiogenesis|endothelial cell activation|negative regulation of BMP signaling pathway|positive regulation of ERK1 and ERK2 cascade|regulation of endothelial cell migration|regulation of pathway-restricted SMAD protein phosphorylation	extracellular space				ovary(2)|central_nervous_system(1)	3						TTACGTGCTGCGTCTTGCTGC	0.662													4	25					0	0	0.001168	0	0	
BMPER	168667	broad.mit.edu	37	7	34118628	34118628	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:34118628G>A	uc011kap.1	+	12	1352	c.1238G>A	c.(1237-1239)CGC>CAC	p.R413H		NM_133468	NP_597725	Q8N8U9	BMPER_HUMAN	BMP-binding endothelial regulator precursor	413	VWFD.				blood vessel endothelial cell proliferation involved in sprouting angiogenesis|endothelial cell activation|negative regulation of BMP signaling pathway|positive regulation of ERK1 and ERK2 cascade|regulation of endothelial cell migration|regulation of pathway-restricted SMAD protein phosphorylation	extracellular space				ovary(2)|central_nervous_system(1)	3						CGCCGGACACGCTCCTTCTCG	0.627													5	62					0	0	0.001984	0	0	
DPY19L2P1	554236	broad.mit.edu	37	7	35131548	35131548	+	Silent	SNP	G	A	A	rs144021252	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:35131548G>A	uc003teq.1	-	20	2145	c.1038C>T	c.(1036-1038)TTC>TTT	p.F346F	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						TGGCACCTGCGAAGACAGCAT	0.388													5	44					0	0	0.004482	0	0	
DPY19L2P1	554236	broad.mit.edu	37	7	35144294	35144294	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:35144294G>A	uc003teq.1	-	18	1921	c.814C>T	c.(814-816)CAC>TAC	p.H272Y	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						ACACACATGTGCAGCGTCAAA	0.358													13	43					0	0	0.006122	0	0	
ANLN	54443	broad.mit.edu	37	7	36447449	36447449	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:36447449C>T	uc003tff.2	+	5	1184	c.980C>T	c.(979-981)ACG>ATG	p.T327M	ANLN_uc011kaz.1_Missense_Mutation_p.T239M|ANLN_uc003tfg.2_Missense_Mutation_p.T327M|ANLN_uc010kxe.2_Missense_Mutation_p.T327M	NM_018685	NP_061155	Q9NQW6	ANLN_HUMAN	anillin, actin binding protein	327	Interaction with F-actin.				cytokinesis|mitosis|regulation of exit from mitosis|septin ring assembly	actomyosin contractile ring|nucleus	actin binding			ovary(2)|skin(1)	3						CCTCTGAAAACGGGGGTATCG	0.393													5	84					0	0	0.000602	0	0	
ELMO1	9844	broad.mit.edu	37	7	37253022	37253022	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:37253022G>A	uc003tfk.1	-	12	1179	c.872C>T	c.(871-873)GCG>GTG	p.A291V	ELMO1_uc011kbc.1_Missense_Mutation_p.A195V|ELMO1_uc010kxg.1_Missense_Mutation_p.A291V	NM_014800	NP_055615	Q92556	ELMO1_HUMAN	engulfment and cell motility 1 isoform 1	291					actin cytoskeleton organization|apoptosis|cellular component movement|phagocytosis, engulfment|Rac protein signal transduction|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|plasma membrane	SH3 domain binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)	6						CAGCTGGTGCGCCATCTCATT	0.458													9	33					0	0	0.004482	0	0	
ELMO1	9844	broad.mit.edu	37	7	37264526	37264526	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:37264526G>A	uc003tfk.1	-	9	966	c.659C>T	c.(658-660)GCG>GTG	p.A220V	ELMO1_uc011kbc.1_Missense_Mutation_p.A124V|ELMO1_uc010kxg.1_Missense_Mutation_p.A220V	NM_014800	NP_055615	Q92556	ELMO1_HUMAN	engulfment and cell motility 1 isoform 1	220					actin cytoskeleton organization|apoptosis|cellular component movement|phagocytosis, engulfment|Rac protein signal transduction|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|plasma membrane	SH3 domain binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)	6						GATCTCCTGCGCCACTTTCTG	0.527													17	49					0	0	0.007413	0	0	
GPR141	353345	broad.mit.edu	37	7	37780303	37780303	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:37780303T>C	uc003tfm.1	+	1	308	c.308T>C	c.(307-309)TTC>TCC	p.F103S	uc003tfl.2_Intron	NM_181791	NP_861456	Q7Z602	GP141_HUMAN	G protein-coupled receptor 141	103	Helical; Name=3; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3						TACCTCACGTTCCTATTCTAT	0.468													15	83					0	0	0.004007	0	0	
SFRP4	6424	broad.mit.edu	37	7	37947223	37947223	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:37947223T>C	uc003tfo.3	-	6	1285	c.899A>G	c.(898-900)GAC>GGC	p.D300G		NM_003014	NP_003005	Q6FHJ7	SFRP4_HUMAN	secreted frizzled-related  protein 4 precursor	300	NTR.				brain development|cell differentiation|decidualization|embryo development|epithelium development|gonad development|mammary gland involution|menstrual cycle phase|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell proliferation|negative regulation of JNK cascade|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of sodium-dependent phosphate transport|phosphate ion homeostasis|positive regulation of apoptosis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of epidermal cell differentiation|positive regulation of gene expression|positive regulation of receptor internalization|vasculature development|Wnt receptor signaling pathway	cell surface|cytoplasm|extracellular space|nucleus	PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(1)	1						TTTCTTCTTGTCCTGAACTGT	0.488													13	46					0	0	0.002450	0	0	
Unknown	0	broad.mit.edu	37	7	38279756	38279756	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:38279756G>A	uc003tfu.3	-	5	488	c.253C>T	c.(253-255)CTG>TTG	p.L85L	uc003tfv.2_Silent_p.L85L					SubName: Full=TARP protein;																		GTGAGCTGCAGCAGTAGTGTA	0.398													15	23					0	0	0.003163	0	0	
INHBA	3624	broad.mit.edu	37	7	41729601	41729601	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:41729601G>A	uc003thq.2	-	2	1163	c.928C>T	c.(928-930)CGG>TGG	p.R310W	INHBA_uc003thr.2_Missense_Mutation_p.R310W	NM_002192	NP_002183	P08476	INHBA_HUMAN	inhibin beta A precursor	310					cell cycle arrest|cell surface receptor linked signaling pathway|defense response|erythrocyte differentiation|eyelid development in camera-type eye|G1/S transition of mitotic cell cycle|growth|hair follicle development|hemoglobin biosynthetic process|hemopoietic progenitor cell differentiation|induction of apoptosis|male gonad development|negative regulation of B cell differentiation|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of follicle-stimulating hormone secretion|negative regulation of interferon-gamma biosynthetic process|negative regulation of macrophage differentiation|negative regulation of phosphorylation|nervous system development|odontogenesis|ovarian follicle development|palate development|positive regulation of erythrocyte differentiation|positive regulation of follicle-stimulating hormone secretion|positive regulation of ovulation|positive regulation of transcription from RNA polymerase II promoter|progesterone secretion|regulation of activin receptor signaling pathway	activin A complex|inhibin A complex	cytokine activity|follistatin binding|growth factor activity|hormone activity|identical protein binding|signal transducer activity			lung(5)|ovary(1)	6						TCCAAGCCCCGCCGACGCCGG	0.463										TSP Lung(11;0.080)			24	35					0	0	0.008361	0	0	
GLI3	2737	broad.mit.edu	37	7	42085021	42085021	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:42085021G>A	uc011kbh.1	-	6	879	c.788C>T	c.(787-789)ACG>ATG	p.T263M	GLI3_uc011kbg.1_Missense_Mutation_p.T204M	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	263					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						GATGGCCCCCGTGCCGGCGGT	0.527									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				30	80					0	0	0.005524	0	0	
C7orf25	79020	broad.mit.edu	37	7	42949911	42949911	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:42949911C>T	uc003thw.2	-	2	1053	c.589G>A	c.(589-591)GCT>ACT	p.A197T	C7orf25_uc010kxq.2_Missense_Mutation_p.A197T|C7orf25_uc003thx.3_Missense_Mutation_p.A255T|C7orf25_uc010kxr.2_Missense_Mutation_p.A255T	NM_024054	NP_076959	Q9BPX7	CG025_HUMAN	hypothetical protein LOC79020 b	197										skin(1)	1						TCTAACAGAGCGTTGACTGCT	0.458													5	69					0	0	0.000602	0	0	
PSMA2	5683	broad.mit.edu	37	7	42967003	42967003	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:42967003C>T	uc003thy.2	-	2	145	c.97G>A	c.(97-99)GCC>ACC	p.A33T	C7orf25_uc010kxr.2_5'UTR|PSMA2_uc010kxt.2_5'UTR|PSMA2_uc003thz.1_Intron	NM_002787	NP_002778	P25787	PSA2_HUMAN	proteasome subunit alpha type 2	33					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|response to virus|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex, alpha-subunit complex	protein binding|threonine-type endopeptidase activity			large_intestine(2)|ovary(1)	3						ACGGACGGGGCTCCTCCAGCT	0.358													22	30					0	0	0.010504	0	0	
HECW1	23072	broad.mit.edu	37	7	43546741	43546741	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:43546741C>T	uc003tid.1	+	22	4242	c.3637C>T	c.(3637-3639)CAG>TAG	p.Q1213*	HECW1_uc011kbi.1_Nonsense_Mutation_p.Q1179*	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	1213					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						TGCAGGTTTACAGAGAGCCAG	0.363													5	74					0	0	0.001168	0	0	
HECW1	23072	broad.mit.edu	37	7	43580834	43580834	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:43580834G>T	uc003tid.1	+	25	4697	c.4092G>T	c.(4090-4092)AGG>AGT	p.R1364S	HECW1_uc011kbi.1_Missense_Mutation_p.R1330S	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	1364	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						TCTTCACGAGGCCCTTCTACA	0.552													17	70					0.00498961	0.00517393	0.004990	1	0	
HECW1	23072	broad.mit.edu	37	7	43594297	43594297	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:43594297C>T	uc003tid.1	+	29	5222	c.4617C>T	c.(4615-4617)AGC>AGT	p.S1539S	HECW1_uc011kbi.1_Silent_p.S1505S	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	1539	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity	p.S1518R(1)		ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						GAACATCCAGCGTGCCCTACG	0.557													4	14					0	0	0.009096	0	0	
AEBP1	165	broad.mit.edu	37	7	44147270	44147270	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:44147270A>G	uc003tkb.2	+	4	1015	c.710A>G	c.(709-711)GAC>GGC	p.D237G		NM_001129	NP_001120	Q8IUX7	AEBP1_HUMAN	adipocyte enhancer binding protein 1 precursor	237	Pro-rich.				cell adhesion|muscle organ development|proteolysis|skeletal system development	cytoplasm|extracellular space|nucleus	DNA binding|metallocarboxypeptidase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GACTACAATGACCAGATCGAG	0.637													3	36					0	0	0.000602	0	0	
NUDCD3	23386	broad.mit.edu	37	7	44432048	44432048	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:44432048C>T	uc003tkz.2	-	5	1009	c.823G>A	c.(823-825)GCC>ACC	p.A275T	NUDCD3_uc010kye.2_RNA	NM_015332	NP_056147	Q8IVD9	NUDC3_HUMAN	NudC domain containing 3	275	CS.										0						TCCAGGATGGCGTTCCACCAA	0.587													7	110					0	0	0.004482	0	0	
DDX56	54606	broad.mit.edu	37	7	44611252	44611252	+	Silent	SNP	G	A	A	rs150750277		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:44611252G>A	uc003tlg.2	-	6	1372	c.729C>T	c.(727-729)GAC>GAT	p.D243D	DDX56_uc003tle.2_RNA|DDX56_uc003tlf.2_Silent_p.D179D|DDX56_uc003tlh.2_RNA|DDX56_uc010kyg.2_Silent_p.D243D|DDX56_uc010kyh.1_RNA	NM_019082	NP_061955	Q9NY93	DDX56_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 56	243	Helicase C-terminal.				rRNA processing	nucleolus	ATP binding|ATP-dependent RNA helicase activity|identical protein binding|RNA binding			upper_aerodigestive_tract(1)	1						GGAGGAATTTGTCTTCCTCAG	0.527													18	57					0	0	0.002299	0	0	
OGDH	4967	broad.mit.edu	37	7	44714124	44714124	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:44714124C>T	uc003tln.2	+	7	1012	c.903C>T	c.(901-903)GGC>GGT	p.G301G	OGDH_uc003tlm.2_Silent_p.G301G|OGDH_uc011kbx.1_Silent_p.G297G|OGDH_uc011kby.1_Silent_p.G151G|OGDH_uc003tlp.2_Silent_p.G312G|OGDH_uc011kbz.1_Silent_p.G96G|OGDH_uc003tlo.1_Silent_p.G134G	NM_002541	NP_002532	Q02218	ODO1_HUMAN	oxoglutarate dehydrogenase isoform 1 precursor	301					glycolysis|lysine catabolic process|tricarboxylic acid cycle	mitochondrial matrix|mitochondrial membrane	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			upper_aerodigestive_tract(1)|ovary(1)	2					NADH(DB00157)	GTGAGAATGGCGTGGACTACG	0.562													5	63					0	0	0.001168	0	0	
ZMIZ2	83637	broad.mit.edu	37	7	44796067	44796067	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:44796067G>A	uc003tlr.2	+	3	217	c.94G>A	c.(94-96)GCC>ACC	p.A32T	ZMIZ2_uc003tlq.2_Missense_Mutation_p.A32T|ZMIZ2_uc003tls.2_Missense_Mutation_p.A32T	NM_031449	NP_113637	Q8NF64	ZMIZ2_HUMAN	zinc finger, MIZ-type containing 2 isoform 1	32					positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear replication fork	ligand-dependent nuclear receptor transcription coactivator activity|protein binding|zinc ion binding			ovary(2)|large_intestine(2)|breast(1)	5						GCAACAAAGCGCCACTCAGCC	0.597													16	31					0	0	0.008871	0	0	
MYO1G	64005	broad.mit.edu	37	7	45010231	45010231	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:45010231C>T	uc003tmh.2	-	9	1321	c.1177G>A	c.(1177-1179)GTG>ATG	p.V393M	MYO1G_uc003tmf.2_5'Flank|MYO1G_uc003tmg.2_Missense_Mutation_p.V155M|MYO1G_uc010kym.2_Missense_Mutation_p.V278M|MYO1G_uc003tmi.1_Missense_Mutation_p.V305M|MYO1G_uc003tmj.2_Missense_Mutation_p.V155M	NM_033054	NP_149043	B0I1T2	MYO1G_HUMAN	myosin IG	393	Myosin head-like.					myosin complex|plasma membrane	actin binding|ATP binding|calmodulin binding|motor activity			breast(2)|ovary(1)|pancreas(1)	4						ATGTCCAGCACGCCAATGACT	0.587													20	37					0	0	0.003330	0	0	
RAMP3	10268	broad.mit.edu	37	7	45222982	45222982	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:45222982C>T	uc003tnb.2	+	3	479	c.418C>T	c.(418-420)CGC>TGC	p.R140C	RAMP3_uc003tnc.2_Missense_Mutation_p.R108C	NM_005856	NP_005847	O60896	RAMP3_HUMAN	receptor activity modifying protein 3 precursor	140	Cytoplasmic (Potential).				intracellular protein transport|receptor-mediated endocytosis|regulation of G-protein coupled receptor protein signaling pathway	integral to plasma membrane|lysosome	protein transporter activity				0					Pramlintide(DB01278)	GGTGGTGTGGCGCAGCAAACG	0.627													12	59					0	0	0.001855	0	0	
ADCY1	107	broad.mit.edu	37	7	45662269	45662269	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:45662269C>T	uc003tne.3	+	4	965	c.947C>T	c.(946-948)GCA>GTA	p.A316V	ADCY1_uc003tnd.2_Missense_Mutation_p.A91V	NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	316	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	ACGGGCTTGGCATCCCAGTGC	0.502													11	26					0	0	0.000978	0	0	
ADCY1	107	broad.mit.edu	37	7	45717589	45717589	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:45717589G>A	uc003tne.3	+	9	1745	c.1727G>A	c.(1726-1728)CGC>CAC	p.R576H		NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	576	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	TTAGAAGCCCGCCAGACAGAG	0.517													9	66					0	0	0.001368	0	0	
TNS3	64759	broad.mit.edu	37	7	47409180	47409180	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:47409180C>T	uc003tnv.2	-	17	1430	c.1063G>A	c.(1063-1065)GCG>ACG	p.A355T	TNS3_uc003tnw.2_Missense_Mutation_p.A355T	NM_022748	NP_073585	Q68CZ2	TENS3_HUMAN	tensin 3	355						focal adhesion	protein binding			ovary(4)	4						CTCACCTTCGCGTAAAGGCTG	0.607													13	22					0	0	0.003163	0	0	
PKD1L1	168507	broad.mit.edu	37	7	47842892	47842892	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:47842892G>A	uc003tny.1	-	53	7878	c.7878C>T	c.(7876-7878)TGC>TGT	p.C2626C	C7orf69_uc003tnz.3_Intron|C7orf69_uc003toa.1_Intron	NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	2626	Helical; (Potential).				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						GAAGATAGACGCATTTTAATG	0.502													13	49					0	0	0.001855	0	0	
PKD1L1	168507	broad.mit.edu	37	7	47971625	47971625	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:47971625C>T	uc003tny.1	-	5	427	c.427G>A	c.(427-429)GCA>ACA	p.A143T		NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	143	Extracellular (Potential).				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						CAGGCCCTTGCGATTATAATG	0.498													5	115					0	0	0.000602	0	0	
ABCA13	154664	broad.mit.edu	37	7	48280633	48280633	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:48280633G>A	uc003toq.2	+	10	1257	c.1232G>A	c.(1231-1233)GGC>GAC	p.G411D	ABCA13_uc010kyr.2_5'UTR	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	411					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						TCAGCAGATGGCCCAAAAGAT	0.443													30	109					0	0	0.004289	0	0	
ABCA13	154664	broad.mit.edu	37	7	48314637	48314637	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:48314637G>A	uc003toq.2	+	17	5399	c.5374G>A	c.(5374-5376)GCA>ACA	p.A1792T	ABCA13_uc010kyr.2_Missense_Mutation_p.A1295T	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	1792					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						GGAAGACTTCGCAATTGTGAT	0.388													4	41					0	0	0.000602	0	0	
ABCA13	154664	broad.mit.edu	37	7	48318199	48318199	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:48318199G>A	uc003toq.2	+	18	7433	c.7408G>A	c.(7408-7410)GCA>ACA	p.A2470T	ABCA13_uc010kys.1_5'Flank	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	2470					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						AAGAAACAGAGCAACATTAGA	0.373													46	140					0	0	0.003610	0	0	
ABCA13	154664	broad.mit.edu	37	7	48413962	48413962	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:48413962G>A	uc003toq.2	+	34	11177	c.11152G>A	c.(11152-11154)GCC>ACC	p.A3718T	ABCA13_uc010kys.1_Missense_Mutation_p.A792T|ABCA13_uc003tos.1_Missense_Mutation_p.A544T|ABCA13_uc010kyt.1_5'Flank	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	3718	Helical; (Potential).				transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						TTCGACAACCGCCTTTGGACA	0.418													8	13					0	0	0.004482	0	0	
ABCA13	154664	broad.mit.edu	37	7	48450180	48450180	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:48450180C>T	uc003toq.2	+	40	12159	c.12134C>T	c.(12133-12135)GCC>GTC	p.A4045V	ABCA13_uc010kys.1_Missense_Mutation_p.A1119V|ABCA13_uc010kyt.1_RNA	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	4045	ABC transporter 1.				transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						GACCGCGTGGCCGTCCTCCAG	0.622													9	84					0	0	0.001368	0	0	
FIGNL1	63979	broad.mit.edu	37	7	50514928	50514928	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:50514928C>T	uc003tpc.2	-	4	435	c.58G>A	c.(58-60)GCA>ACA	p.A20T	FIGNL1_uc003tpb.2_5'UTR|FIGNL1_uc003tpd.2_Missense_Mutation_p.A20T|FIGNL1_uc003tpe.2_Missense_Mutation_p.A20T|FIGNL1_uc010kyy.2_Missense_Mutation_p.A20T	NM_001042762	NP_001036227	Q6PIW4	FIGL1_HUMAN	fidgetin-like 1	20					ATP metabolic process|negative regulation of apoptosis|osteoblast differentiation|osteoblast proliferation|regulation of cell cycle	cytoplasm|nucleus	ATP binding|magnesium ion binding|nucleoside-triphosphatase activity			ovary(3)	3	Glioma(55;0.08)|all_neural(89;0.245)	Acute lymphoblastic leukemia(4;3.73e-08)|all_hematologic(4;7.51e-06)				GATGTAATTGCGAAGTAATTC	0.423													5	36					0	0	0.000602	0	0	
DDC	1644	broad.mit.edu	37	7	50611704	50611704	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:50611704C>T	uc003tpf.3	-	2	166	c.80G>A	c.(79-81)CGC>CAC	p.R27H	DDC_uc010kza.2_Missense_Mutation_p.R27H|DDC_uc003tpg.3_Missense_Mutation_p.R27H	NM_000790	NP_000781	P20711	DDC_HUMAN	dopa decarboxylase (aromatic L-amino acid	27					cellular amino acid metabolic process|hormone biosynthetic process|neurotransmitter secretion	cytosol	aromatic-L-amino-acid decarboxylase activity|protein binding|pyridoxal phosphate binding			ovary(2)	2	Glioma(55;0.08)|all_neural(89;0.245)				Amantadine(DB00915)|Carbidopa(DB00190)|Flupenthixol(DB00875)|L-Tryptophan(DB00150)|Levodopa(DB01235)|Pimozide(DB01100)|Pyridoxal Phosphate(DB00114)|Remoxipride(DB00409)	GTAGACCTGGCGTCCCTCAAT	0.582													30	87					0	0	0.009535	0	0	
GRB10	2887	broad.mit.edu	37	7	50771543	50771543	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:50771543C>T	uc003tpi.2	-	2	145	c.114G>A	c.(112-114)CAG>CAA	p.Q38Q	GRB10_uc003tph.3_5'UTR|GRB10_uc003tpj.2_Silent_p.Q38Q|GRB10_uc003tpk.2_Silent_p.Q38Q|GRB10_uc010kzb.2_5'UTR|GRB10_uc003tpl.2_Silent_p.Q32Q|GRB10_uc003tpm.2_5'UTR|GRB10_uc003tpn.2_5'UTR	NM_005311	NP_005302	Q13322	GRB10_HUMAN	growth factor receptor-bound protein 10 isoform	38					insulin receptor signaling pathway|insulin receptor signaling pathway|negative regulation of glucose import|negative regulation of glycogen biosynthetic process|negative regulation of insulin receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway	cytosol|plasma membrane	insulin receptor binding|insulin receptor binding|SH3/SH2 adaptor activity			lung(3)|ovary(2)|upper_aerodigestive_tract(1)	6	Glioma(55;0.08)|all_neural(89;0.245)					GTCGGTCAGACTGTGCGGGGA	0.512									Russell-Silver_syndrome				6	59					0	0	0.001984	0	0	
EGFR	1956	broad.mit.edu	37	7	55214312	55214312	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:55214312C>T	uc003tqk.2	+	4	684	c.438C>T	c.(436-438)GGC>GGT	p.G146G	EGFR_uc003tqh.2_Silent_p.G146G|EGFR_uc003tqi.2_Silent_p.G146G|EGFR_uc003tqj.2_Silent_p.G146G|EGFR_uc010kzg.1_Intron|EGFR_uc011kco.1_Silent_p.G93G	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a	146	Approximate.|Extracellular (Potential).				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity	p.V30_R297>G(5)		lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)	TCCTGCATGGCGCCGTGCGGT	0.527		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			4	47					0	0	0.009096	0	0	
EGFR	1956	broad.mit.edu	37	7	55220348	55220348	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:55220348C>T	uc003tqk.2	+	6	984	c.738C>T	c.(736-738)AGC>AGT	p.S246S	EGFR_uc003tqh.2_Silent_p.S246S|EGFR_uc003tqi.2_Silent_p.S246S|EGFR_uc003tqj.2_Silent_p.S246S|EGFR_uc010kzg.1_Silent_p.S201S|EGFR_uc011kco.1_Silent_p.S193S|EGFR_uc003tql.1_RNA	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a	246	Approximate.|Extracellular (Potential).				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity	p.V30_R297>G(5)		lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)	CCCGGGAGAGCGACTGCCTGG	0.677		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			11	36					0	0	0.002450	0	0	
EGFR	1956	broad.mit.edu	37	7	55221829	55221829	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:55221829C>T	uc003tqk.2	+	7	1119	c.873C>T	c.(871-873)TGC>TGT	p.C291C	EGFR_uc003tqh.2_Silent_p.C291C|EGFR_uc003tqi.2_Silent_p.C291C|EGFR_uc003tqj.2_Silent_p.C291C|EGFR_uc010kzg.1_Silent_p.C246C|EGFR_uc011kco.1_Silent_p.C238C|EGFR_uc011kcp.1_5'Flank|EGFR_uc011kcq.1_5'Flank	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a	291	Approximate.|Extracellular (Potential).				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity	p.V30_R297>G(5)		lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)	GTGCCACCTGCGTGAAGAAGT	0.592		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			6	61					0	0	0.001168	0	0	
EGFR	1956	broad.mit.edu	37	7	55242511	55242511	+	Missense_Mutation	SNP	G	A	A	rs121913418		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:55242511G>A	uc003tqk.2	+	19	2527	c.2281G>A	c.(2281-2283)GAT>AAT	p.D761N	EGFR_uc010kzg.1_Missense_Mutation_p.D716N|EGFR_uc011kco.1_Missense_Mutation_p.D708N	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a	761	Cytoplasmic (Potential).|Protein kinase.				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity	p.D761Y(5)|p.D761_E762insEAFQ(3)|p.D761G(2)|p.S752_V769del(1)|p.D761N(1)		lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)	GGAAATCCTCGATGTGAGTTT	0.498		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			4	61					0	0	0.000602	0	0	
LANCL2	55915	broad.mit.edu	37	7	55479775	55479775	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:55479775C>T	uc003tqp.2	+	6	1579	c.1001C>T	c.(1000-1002)GCG>GTG	p.A334V		NM_018697	NP_061167	Q9NS86	LANC2_HUMAN	LanC lantibiotic synthetase component C-like 2	334					negative regulation of transcription, DNA-dependent|positive regulation of abscisic acid mediated signaling pathway	cortical actin cytoskeleton|cytosol|nucleus|plasma membrane	ATP binding|catalytic activity|GTP binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4-phosphate binding|phosphatidylinositol-5-phosphate binding			ovary(1)|skin(1)	2	Breast(14;0.0379)		Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00128)|Epithelial(13;0.0706)			CTCATGCAGGCGTACAAGGTC	0.577													13	30					0	0	0.002450	0	0	
FKBP9L	360132	broad.mit.edu	37	7	55755533	55755533	+	Silent	SNP	G	A	A	rs62455750	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:55755533G>A	uc010kzl.2	-	4	460	c.360C>T	c.(358-360)TGC>TGT	p.C120C	FKBP9L_uc010kzk.2_Silent_p.C9C|FKBP9L_uc003tqt.2_Silent_p.C9C|FKBP9L_uc011kcs.1_Silent_p.C9C	NR_003949				SubName: Full=cDNA, FLJ79189, highly similar to FK506-binding protein 9 (EC 5.2.1.8);												0						TCTCGCCAACGCACATCTCTC	0.517													7	60					0	0	0.004482	0	0	
CCT6A	908	broad.mit.edu	37	7	56122107	56122107	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:56122107G>A	uc003trl.1	+	3	411	c.247G>A	c.(247-249)GCC>ACC	p.A83T	PSPH_uc003trh.2_5'Flank|PSPH_uc003tri.2_5'Flank|PSPH_uc003trj.2_Intron|PSPH_uc003trk.1_5'Flank|CCT6A_uc003trm.1_Intron|CCT6A_uc011kcu.1_Missense_Mutation_p.A52T	NM_001762	NP_001753	P40227	TCPZ_HUMAN	chaperonin containing TCP1, subunit 6A isoform	83					'de novo' posttranslational protein folding	cytosol	ATP binding|unfolded protein binding			upper_aerodigestive_tract(1)	1	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			GGTAGCAACAGCCCAGGATGA	0.383													26	92					0	0	0.006320	0	0	
GUSB	2990	broad.mit.edu	37	7	65439577	65439577	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:65439577G>A	uc003tun.2	-	7	1256	c.1180C>T	c.(1180-1182)CAG>TAG	p.Q394*	GUSB_uc011kdt.1_Nonsense_Mutation_p.Q248*	NM_000181	NP_000172	P08236	BGLR_HUMAN	glucuronidase, beta precursor	394					glycosaminoglycan catabolic process	lysosome	beta-glucuronidase activity|cation binding				0						TCACACATCTGCATCACTTCC	0.612													11	40					0	0	0.000978	0	0	
AUTS2	26053	broad.mit.edu	37	7	70255333	70255333	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:70255333G>A	uc003tvw.3	+	19	3874	c.3131G>A	c.(3130-3132)CGC>CAC	p.R1044H	AUTS2_uc003tvx.3_Missense_Mutation_p.R1020H|AUTS2_uc011keg.1_Missense_Mutation_p.R496H	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	1044										ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		GACAGGACTCGCATGATGACC	0.662													10	15					0	0	0.006214	0	0	
WBSCR17	64409	broad.mit.edu	37	7	71142200	71142200	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:71142200G>A	uc003tvy.2	+	9	1409	c.1409G>A	c.(1408-1410)CGC>CAC	p.R470H	WBSCR17_uc003tvz.2_Missense_Mutation_p.R169H	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	470	Ricin B-type lectin.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				TTGCAGCTTCGCAACAACAAG	0.532													11	194					0	0	0.001368	0	0	
POM121	9883	broad.mit.edu	37	7	72413634	72413634	+	Silent	SNP	G	A	A	rs139238552	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:72413634G>A	uc003twk.2	+	11	3102	c.3102G>A	c.(3100-3102)ACG>ACA	p.T1034T	POM121_uc003twj.2_Silent_p.T769T|POM121_uc010lam.1_Silent_p.T769T	NM_172020	NP_742017	Q96HA1	P121A_HUMAN	nuclear pore membrane protein 121	1034	Pore side (Potential).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore					0		Lung NSC(55;0.163)				GCGGTGCCACGCACTCGGCGT	0.652													14	37					0	0	0.004007	0	0	
NSUN5	55695	broad.mit.edu	37	7	72722781	72722781	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:72722781G>A	uc003txw.2	-	1	43	c.7C>T	c.(7-9)CTG>TTG	p.L3L	FKBP6_uc003twz.2_Intron|NSUN5_uc003txv.2_Silent_p.L3L|NSUN5_uc003txx.2_Silent_p.L3L|NSUN5_uc011kev.1_Silent_p.L3L	NM_018044	NP_060514	Q96P11	NSUN5_HUMAN	NOL1/NOP2/Sun domain family, member 5 isoform 2	3							methyltransferase activity				0		Lung NSC(55;0.163)				GCAGCATACAGCCCCATGTTC	0.662													4	15					0	0	0.001168	0	0	
BAZ1B	9031	broad.mit.edu	37	7	72884801	72884801	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:72884801C>T	uc003tyc.2	-	8	2951	c.2606G>A	c.(2605-2607)CGC>CAC	p.R869H		NM_032408	NP_115784	Q9UIG0	BAZ1B_HUMAN	bromodomain adjacent to zinc finger domain, 1B	869	Potential.				ATP-dependent chromatin remodeling|chromatin-mediated maintenance of transcription|DNA replication-dependent nucleosome disassembly|double-strand break repair|heart morphogenesis|transcription, DNA-dependent	WINAC complex	ATP binding|chromatin binding|histone acetyl-lysine binding|histone kinase activity|non-membrane spanning protein tyrosine kinase activity|protein complex scaffold|vitamin D receptor activator activity|vitamin D receptor binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	7		Lung NSC(55;0.0659)|all_lung(88;0.152)				TTCAGCTTGGCGTTCCAGTTT	0.398													6	89					0	0	0.004482	0	0	
BAZ1B	9031	broad.mit.edu	37	7	72891452	72891452	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:72891452C>T	uc003tyc.2	-	7	2684	c.2339G>A	c.(2338-2340)CGG>CAG	p.R780Q		NM_032408	NP_115784	Q9UIG0	BAZ1B_HUMAN	bromodomain adjacent to zinc finger domain, 1B	780	Potential.				ATP-dependent chromatin remodeling|chromatin-mediated maintenance of transcription|DNA replication-dependent nucleosome disassembly|double-strand break repair|heart morphogenesis|transcription, DNA-dependent	WINAC complex	ATP binding|chromatin binding|histone acetyl-lysine binding|histone kinase activity|non-membrane spanning protein tyrosine kinase activity|protein complex scaffold|vitamin D receptor activator activity|vitamin D receptor binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	7		Lung NSC(55;0.0659)|all_lung(88;0.152)				CACAGCAAGCCGTTCCTTCCA	0.308													13	55					0	0	0.001855	0	0	
TBL2	26608	broad.mit.edu	37	7	72987764	72987764	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:72987764G>A	uc003tyh.2	-	4	618	c.484C>T	c.(484-486)CGT>TGT	p.R162C	TBL2_uc011kex.1_Missense_Mutation_p.R126C|TBL2_uc010lbg.2_Missense_Mutation_p.R67C|TBL2_uc003tyi.2_5'UTR|TBL2_uc011key.1_Missense_Mutation_p.R33C|TBL2_uc010lbh.2_Missense_Mutation_p.R67C	NM_012453	NP_036585	Q9Y4P3	TBL2_HUMAN	transducin (beta)-like 2	162	WD 2.										0		Lung NSC(55;0.0659)|all_lung(88;0.152)				TTGAAGACACGGAGGGTGTCC	0.577													4	45					0	0	0.000602	0	0	
ELN	2006	broad.mit.edu	37	7	73474271	73474271	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:73474271T>C	uc003tzw.2	+	23	1579	c.1488T>C	c.(1486-1488)GGT>GGC	p.G496G	RFC2_uc011kfa.1_Intron|ELN_uc003tzn.2_Silent_p.G490G|ELN_uc003tzz.2_Silent_p.G409G|ELN_uc003tzo.2_Silent_p.G457G|ELN_uc003tzp.2_Silent_p.G401G|ELN_uc003tzq.2_Silent_p.G354G|ELN_uc003tzr.2_Intron|ELN_uc003tzs.2_Silent_p.G471G|ELN_uc003tzt.2_Silent_p.G495G|ELN_uc003tzu.2_Silent_p.G476G|ELN_uc003tzv.2_Silent_p.G461G|ELN_uc003tzx.2_Silent_p.G480G|ELN_uc011kff.1_Silent_p.G490G|ELN_uc003tzy.2_Silent_p.G466G	NM_000501	NP_001075224	P15502	ELN_HUMAN	elastin isoform a precursor	519	Ala-rich.				blood circulation|cell proliferation|organ morphogenesis|respiratory gaseous exchange	proteinaceous extracellular matrix	extracellular matrix constituent conferring elasticity|protein binding			ovary(3)|pancreas(2)	5		Lung NSC(55;0.159)			Rofecoxib(DB00533)	CTGGTGTCGGTGTGGCTCCTG	0.587			T	PAX5	B-ALL		Supravalvular Aortic Stenosis|Cutis laxa |Williams-Beuren Syndrome						29	63					0	0	0.002096	0	0	
LAT2	7462	broad.mit.edu	37	7	73636001	73636001	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:73636001C>T	uc003uag.2	+	10	917	c.367C>T	c.(367-369)CGG>TGG	p.R123W	RFC2_uc011kfa.1_Intron|LAT2_uc003uah.2_Missense_Mutation_p.R123W|LAT2_uc003uai.2_Missense_Mutation_p.R123W|LAT2_uc010lbo.2_Intron	NM_032464	NP_115853	Q9GZY6	NTAL_HUMAN	linker for activation of T cells family member	123	Cytoplasmic (Potential).				B cell activation|B cell receptor signaling pathway|calcium-mediated signaling|mast cell degranulation	integral to membrane|intracellular|membrane raft|plasma membrane	SH2 domain binding				0						CAACTGGGGGCGGTTCTCGAA	0.577													15	93					0	0	0.010504	0	0	
GTF2IRD1	9569	broad.mit.edu	37	7	73944220	73944220	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:73944220G>A	uc003uaq.2	+	9	1640	c.1247G>A	c.(1246-1248)CGC>CAC	p.R416H	GTF2IRD1_uc010lbq.2_Missense_Mutation_p.R448H|GTF2IRD1_uc003uap.2_Missense_Mutation_p.R416H|GTF2IRD1_uc003uar.1_Missense_Mutation_p.R416H	NM_016328	NP_057412	Q9UHL9	GT2D1_HUMAN	GTF2I repeat domain containing 1 isoform 1	416	GTF2I-like 2.					nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(4)	4						CTGGAGGAGCGCCATAGTATC	0.408													5	12					0	0	0.003080	0	0	
POM121C	100101267	broad.mit.edu	37	7	75068501	75068501	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:75068501G>A	uc010lde.1	-	4	955	c.955C>T	c.(955-957)CGC>TGC	p.R319C	POM121C_uc003udk.3_Missense_Mutation_p.R77C			A8CG34	P121C_HUMAN	Homo sapiens POM121-2 mRNA for nuclear pore membrane protein 121-2, partial cds.	319	Required for targeting to the nucleus and nuclear pore complex.|Pore side (Potential).				mRNA transport|protein transport|transmembrane transport	endoplasmic reticulum membrane|nuclear membrane|nuclear pore	protein binding				0						CTATCATGGCGCCTGCGACAA	0.458													39	126					0	0	0.003610	0	0	
SPDYE5	442590	broad.mit.edu	37	7	75130895	75130895	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:75130895C>T	uc011kfy.1	+	6	906	c.770C>T	c.(769-771)CCG>CTG	p.P257L		NM_001099435	NP_001092905	A6NIY4	SPDE5_HUMAN	speedy homolog E5	257	Arg-rich.										0						TCCATGAACCCGAGGGCCAGG	0.592													5	277					0	0	0.000602	0	0	
RHBDD2	57414	broad.mit.edu	37	7	75517323	75517323	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:75517323C>T	uc003udw.1	+	4	835	c.751C>T	c.(751-753)CCT>TCT	p.P251S	RHBDD2_uc003udv.1_Missense_Mutation_p.P110S	NM_001040456	NP_001035546	Q6NTF9	RHBD2_HUMAN	rhomboid domain containing 2 isoform a	251						integral to membrane	serine-type endopeptidase activity				0						GAACCCGGTGCCTGGCTCCTA	0.597													5	116					0	0	0.001168	0	0	
POR	5447	broad.mit.edu	37	7	75608862	75608862	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:75608862C>T	uc003udy.2	+	4	413	c.331C>T	c.(331-333)CGA>TGA	p.R111*	POR_uc011kgb.1_RNA|POR_uc011kgc.1_5'Flank|POR_uc011kgd.1_5'Flank|POR_uc011kge.1_5'Flank	NM_000941	NP_000932	P16435	NCPR_HUMAN	cytochrome P450 reductase	108	Flavodoxin-like.				cellular organofluorine metabolic process|positive regulation of monooxygenase activity	endoplasmic reticulum membrane	iron ion binding|NADPH-hemoprotein reductase activity			central_nervous_system(1)	1					Benzphetamine(DB00865)|Daunorubicin(DB00694)|Lipoic Acid(DB00166)|Menadione(DB00170)|Methoxyflurane(DB01028)|Mitomycin(DB00305)|Nilutamide(DB00665)	CTACGGGATGCGAGGCATGTC	0.622													7	33					0	0	0.004482	0	0	
RSBN1L	222194	broad.mit.edu	37	7	77407902	77407902	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:77407902G>A	uc010ldt.1	+	8	2002	c.1958G>A	c.(1957-1959)CGC>CAC	p.R653H	RSBN1L_uc003ugm.2_Missense_Mutation_p.R435H	NM_198467	NP_940869	Q6PCB5	RSBNL_HUMAN	round spermatid basic protein 1-like	653						nucleus				ovary(1)	1						GAAGGCATTCGCTATGCCAGG	0.348													37	101					0	0	0.005524	0	0	
MAGI2	9863	broad.mit.edu	37	7	77824371	77824371	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:77824371G>A	uc003ugx.2	-	12	2343	c.2089C>T	c.(2089-2091)CGA>TGA	p.R697*	MAGI2_uc003ugy.2_Nonsense_Mutation_p.R697*|MAGI2_uc010ldx.1_Nonsense_Mutation_p.R306*|MAGI2_uc010ldy.1_Nonsense_Mutation_p.R306*	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	697						cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				TTCTCCCATCGGTCCATTATC	0.478													3	27					0	0	0.009096	0	0	
GNAT3	346562	broad.mit.edu	37	7	80088124	80088124	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:80088124G>C	uc011kgu.1	-	8	928	c.928C>G	c.(928-930)CTG>GTG	p.L310V	CD36_uc003uhc.2_Intron	NM_001102386	NP_001095856	A8MTJ3	GNAT3_HUMAN	guanine nucleotide binding protein, alpha	310					detection of chemical stimulus involved in sensory perception of bitter taste|G-protein signaling, coupled to cAMP nucleotide second messenger|rhodopsin mediated phototransduction|sensory perception of sweet taste|sensory perception of umami taste	cytoplasm|heterotrimeric G-protein complex|photoreceptor inner segment|photoreceptor outer segment	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			ovary(1)	1						TTTAAATTCAGGTCTAGAAAC	0.323													10	14					0	0	0.006214	0	0	
CACNA2D1	781	broad.mit.edu	37	7	81588645	81588645	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:81588645A>G	uc003uhr.1	-	38	3361	c.3105T>C	c.(3103-3105)GTT>GTC	p.V1035V	CACNA2D1_uc011kgy.1_Silent_p.V247V	NM_000722	NP_000713	P54289	CA2D1_HUMAN	calcium channel, voltage-dependent, alpha	1047	Extracellular (Potential).					voltage-gated calcium channel complex	metal ion binding			ovary(5)|pancreas(1)	6					Felodipine(DB01023)|Gabapentin(DB00996)|Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Nifedipine(DB01115)	TGGGTTGCTTAACCATGTCAC	0.343													4	59					0	0	0.001168	0	0	
PCLO	27445	broad.mit.edu	37	7	82545507	82545507	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:82545507G>A	uc003uhx.2	-	7	12084	c.11795C>T	c.(11794-11796)GCA>GTA	p.A3932V	PCLO_uc003uhv.2_Missense_Mutation_p.A3932V|PCLO_uc010lec.2_Missense_Mutation_p.A897V	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	3863	Gln-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GGACATTGTTGCCACAGCTTG	0.458													15	411					0	0	0.003163	0	0	
PCLO	27445	broad.mit.edu	37	7	82581328	82581328	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:82581328G>A	uc003uhx.2	-	5	9230	c.8941C>T	c.(8941-8943)CCA>TCA	p.P2981S	PCLO_uc003uhv.2_Missense_Mutation_p.P2981S|PCLO_uc010lec.2_5'Flank	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	2912					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TAACCATATGGCCCTGATCGA	0.433													19	252					0	0	0.003954	0	0	
SEMA3A	10371	broad.mit.edu	37	7	83590759	83590759	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:83590759C>A	uc003uhz.2	-	17	2559	c.2244G>T	c.(2242-2244)AAG>AAT	p.K748N		NM_006080	NP_006071	Q14563	SEM3A_HUMAN	semaphorin 3A precursor	748	Arg/Lys-rich (basic).				axon guidance	extracellular region|membrane	receptor activity			ovary(2)|breast(1)|kidney(1)	4						CTTGTAAGTGCTTCCATTTGT	0.458													17	150					2.5808e-16	2.8136e-16	0.006122	1	0	
GRM3	2913	broad.mit.edu	37	7	86415724	86415724	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:86415724C>T	uc003uid.2	+	3	1715	c.616C>T	c.(616-618)CGC>TGC	p.R206C	GRM3_uc010lef.2_Missense_Mutation_p.R204C|GRM3_uc010leg.2_Missense_Mutation_p.R78C|GRM3_uc010leh.2_Intron	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	206	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	TGAGATCTTGCGCTTCTTCAA	0.577													5	55					0	0	0.000602	0	0	
KIAA1324L	222223	broad.mit.edu	37	7	86542475	86542475	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:86542475C>T	uc011kha.1	-	14	1962	c.1777G>A	c.(1777-1779)GCC>ACC	p.A593T	KIAA1324L_uc003uif.1_Missense_Mutation_p.A353T|KIAA1324L_uc011kgz.1_Missense_Mutation_p.A479T|KIAA1324L_uc003uie.2_Missense_Mutation_p.A426T	NM_001142749	NP_001136221	A8MWY0	K132L_HUMAN	hypothetical protein LOC222223 isoform 1	593	Extracellular (Potential).					integral to membrane				ovary(6)|skin(1)	7	Esophageal squamous(14;0.0058)					GCATTAGTGGCTGTGATAGAA	0.488													15	24					0	0	0.002450	0	0	
CROT	54677	broad.mit.edu	37	7	87006753	87006753	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:87006753G>A	uc003uit.2	+	10	1210	c.965G>A	c.(964-966)GGC>GAC	p.G322D	CROT_uc003uiu.2_Missense_Mutation_p.G350D	NM_021151	NP_066974	Q9UKG9	OCTC_HUMAN	peroxisomal carnitine O-octanoyltransferase	322					fatty acid beta-oxidation using acyl-CoA oxidase|generation of precursor metabolites and energy|transport	peroxisomal matrix	carnitine O-octanoyltransferase activity			ovary(2)|lung(1)	3	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)				L-Carnitine(DB00583)	GGAGTATTTGGCTGTAATTGT	0.323													7	37					0	0	0.001984	0	0	
ABCB1	5243	broad.mit.edu	37	7	87160729	87160729	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:87160729G>A	uc003uiz.1	-	22	2984	c.2566C>T	c.(2566-2568)CAA>TAA	p.Q856*	ABCB1_uc011khc.1_Nonsense_Mutation_p.Q792*	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	856	ABC transmembrane type-1 2.|Helical; (Potential).				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	AGTGTTAGTTGCCAACCATAG	0.373													8	86					0	0	0.003080	0	0	
DBF4	10926	broad.mit.edu	37	7	87533646	87533646	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:87533646A>G	uc003ujf.1	+	11	1468	c.964A>G	c.(964-966)AAC>GAC	p.N322D	DBF4_uc003ujh.1_Missense_Mutation_p.N62D|DBF4_uc003ujg.1_Missense_Mutation_p.N98D|DBF4_uc011khf.1_Missense_Mutation_p.N89D	NM_006716	NP_006707	Q9UBU7	DBF4A_HUMAN	activator of S phase kinase	322	DBF4-type.				cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle	nucleoplasm	enzyme activator activity|nucleic acid binding|protein binding|zinc ion binding			lung(2)	2	Esophageal squamous(14;0.00202)	Breast(660;0.0334)				TGCACAGAGTAACCAGTATCA	0.289													14	53					0	0	0.003163	0	0	
CDK14	5218	broad.mit.edu	37	7	90747451	90747451	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:90747451A>G	uc003uky.2	+	14	1588	c.1366A>G	c.(1366-1368)AAA>GAA	p.K456E	CDK14_uc003ukz.1_Missense_Mutation_p.K438E|CDK14_uc010les.1_Missense_Mutation_p.K410E|CDK14_uc011khl.1_Missense_Mutation_p.K327E	NM_012395	NP_036527	O94921	CDK14_HUMAN	PFTAIRE protein kinase 1	456					cell division|G2/M transition of mitotic cell cycle|regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasmic cyclin-dependent protein kinase holoenzyme complex|nucleus|plasma membrane	ATP binding|cyclin binding|cyclin-dependent protein kinase activity			lung(3)|ovary(1)	4						GGCCTTTGGGAAAAACAATAG	0.418													26	73					0	0	0.007291	0	0	
MTERF	7978	broad.mit.edu	37	7	91503707	91503707	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:91503707C>T	uc003ulb.1	-	2	445	c.401G>A	c.(400-402)CGT>CAT	p.R134H	MTERF_uc010let.1_Intron|MTERF_uc003ulc.1_Missense_Mutation_p.R134H|MTERF_uc011khm.1_Missense_Mutation_p.R114H|MTERF_uc010leu.1_Missense_Mutation_p.R114H	NM_006980	NP_008911	Q99551	MTERF_HUMAN	mitochondrial transcription termination factor	134					DNA geometric change|regulation of transcription, DNA-dependent|termination of mitochondrial transcription	mitochondrial nucleoid	double-stranded DNA binding				0	all_cancers(62;2.28e-09)|all_epithelial(64;1.07e-07)|Breast(17;0.00371)|all_hematologic(106;0.091)|all_lung(186;0.178)|Lung NSC(181;0.235)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.0993)|Kidney(17;0.118)|Epithelial(20;0.136)|LUSC - Lung squamous cell carcinoma(200;0.176)			CTCGGGAGTACGTGTTATTGC	0.408													39	145					0	0	0.003214	0	0	
AKAP9	10142	broad.mit.edu	37	7	91652318	91652318	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:91652318G>A	uc003ulg.2	+	14	4368	c.4143G>A	c.(4141-4143)CCG>CCA	p.P1381P	AKAP9_uc003ule.2_Silent_p.P1393P|AKAP9_uc003ulf.2_Silent_p.P1381P|AKAP9_uc003uli.2_Silent_p.P1006P	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	1393					G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			CCACGGTTCCGCCAAGGTATT	0.378			T	BRAF	papillary thyroid								23	83					0	0	0.001882	0	0	
AKAP9	10142	broad.mit.edu	37	7	91718798	91718798	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:91718798A>G	uc003ulg.2	+	38	9538	c.9313A>G	c.(9313-9315)AAA>GAA	p.K3105E	AKAP9_uc003ulf.2_Missense_Mutation_p.K3097E|AKAP9_uc003uli.2_Missense_Mutation_p.K2728E|AKAP9_uc003ulj.2_Missense_Mutation_p.K875E|AKAP9_uc003ulk.2_Missense_Mutation_p.K380E|AKAP9_uc003ull.2_5'Flank	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	3109					G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			GAATGGTAGGAAAATTACTCT	0.393			T	BRAF	papillary thyroid								6	90					0	0	0.003080	0	0	
AKAP9	10142	broad.mit.edu	37	7	91737871	91737871	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:91737871C>T	uc003ulg.2	+	49	11835	c.11610C>T	c.(11608-11610)TAC>TAT	p.Y3870Y	AKAP9_uc003ulf.2_Silent_p.Y3862Y|AKAP9_uc003uli.2_Silent_p.Y3493Y|AKAP9_uc003ulj.2_Silent_p.Y1640Y|AKAP9_uc003ull.2_Silent_p.Y766Y	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	3874					G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			TTCAGAATTACGATCCTGACA	0.418			T	BRAF	papillary thyroid								5	71					0	0	0.000602	0	0	
SAMD9	54809	broad.mit.edu	37	7	92732197	92732197	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:92732197G>A	uc003umf.2	-	3	3470	c.3214C>T	c.(3214-3216)CTT>TTT	p.L1072F	SAMD9_uc003umg.2_Missense_Mutation_p.L1072F	NM_017654	NP_060124	Q5K651	SAMD9_HUMAN	sterile alpha motif domain containing 9	1072						cytoplasm				ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7	all_cancers(62;5.71e-11)|all_epithelial(64;3.25e-10)|Breast(17;0.000675)|Lung NSC(181;0.0969)|all_lung(186;0.125)		STAD - Stomach adenocarcinoma(171;0.000302)			ATACTTTCAAGCAATACAGCT	0.388													11	72					0	0	0.000978	0	0	
HEPACAM2	253012	broad.mit.edu	37	7	92848701	92848701	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:92848701G>A	uc003umm.2	-	2	166	c.143C>T	c.(142-144)GCC>GTC	p.A48V	HEPACAM2_uc003uml.2_Missense_Mutation_p.A36V|HEPACAM2_uc010lff.2_Missense_Mutation_p.A36V|HEPACAM2_uc011khy.1_Missense_Mutation_p.A71V	NM_001039372	NP_001034461	A8MVW5	HECA2_HUMAN	HEPACAM family member 2 isoform 1	48	Extracellular (Potential).					integral to membrane				ovary(3)|breast(1)|kidney(1)	5						TAGGTAGAGGGCCTGACCTCT	0.517													22	72					0	0	0.004656	0	0	
TFPI2	7980	broad.mit.edu	37	7	93519977	93519977	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:93519977C>T	uc003umy.1	-	1	89	c.14G>A	c.(13-15)CGC>CAC	p.R5H	GNGT1_uc003umx.1_Intron|TFPI2_uc003umz.1_Missense_Mutation_p.R5H|TFPI2_uc003una.1_Missense_Mutation_p.R5H|TFPI2_uc003unb.1_Missense_Mutation_p.R5H|TFPI2_uc010lfg.1_Missense_Mutation_p.R5H	NM_006528	NP_006519	P48307	TFPI2_HUMAN	tissue factor pathway inhibitor 2 precursor	5					blood coagulation	proteinaceous extracellular matrix	extracellular matrix structural constituent|serine-type endopeptidase inhibitor activity			pancreas(1)	1	all_cancers(62;4.45e-10)|all_epithelial(64;2.92e-09)|Lung NSC(181;0.218)		STAD - Stomach adenocarcinoma(171;0.000967)			CCCCAGGGGGCGAGCGGGGTC	0.692													6	9					0	0	0.001984	0	0	
COL1A2	1278	broad.mit.edu	37	7	94057646	94057646	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:94057646G>A	uc003ung.1	+	50	4039	c.3568G>A	c.(3568-3570)GCT>ACT	p.A1190T	COL1A2_uc011kib.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	1190	Fibrillar collagen NC1.				axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	CACTATGGATGCTATCAAAGT	0.418										HNSCC(75;0.22)			35	123					0	0	0.002852	0	0	
ASB4	51666	broad.mit.edu	37	7	95157128	95157128	+	Missense_Mutation	SNP	C	T	T	rs138454369		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:95157128C>T	uc011kij.1	+	3	491	c.491C>T	c.(490-492)GCG>GTG	p.A164V	ASB4_uc003unx.2_Missense_Mutation_p.A164V	NM_016116	NP_057200	Q9Y574	ASB4_HUMAN	ankyrin repeat and SOCS box-containing protein 4	164	ANK 3.				intracellular signal transduction					central_nervous_system(1)	1	all_cancers(62;2.27e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.218)|all_lung(186;0.246)		STAD - Stomach adenocarcinoma(171;0.0151)			TTTATAGGGGCGAATGTGAAC	0.438											OREG0018172	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	27					0	0	0.004482	0	0	
ASB4	51666	broad.mit.edu	37	7	95157168	95157168	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:95157168G>A	uc011kij.1	+	3	531	c.531G>A	c.(529-531)ACG>ACA	p.T177T	ASB4_uc003unx.2_Silent_p.T177T	NM_016116	NP_057200	Q9Y574	ASB4_HUMAN	ankyrin repeat and SOCS box-containing protein 4	177	ANK 4.				intracellular signal transduction					central_nervous_system(1)	1	all_cancers(62;2.27e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.218)|all_lung(186;0.246)		STAD - Stomach adenocarcinoma(171;0.0151)			ATGAGGAGACGCCCTTGCACA	0.498											OREG0018172	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	26					0	0	0.001168	0	0	
TECPR1	25851	broad.mit.edu	37	7	97850998	97850998	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:97850998C>T	uc003upg.2	-	23	3337	c.3132G>A	c.(3130-3132)ACG>ACA	p.T1044T		NM_015395	NP_056210	Q7Z6L1	TCPR1_HUMAN	tectonin beta-propeller repeat containing 1	1044	TECPR 8.					integral to membrane	protein binding			pancreas(1)	1						CATACACCGACGTCTGCCCCG	0.438													10	24					0	0	0.001855	0	0	
NPTX2	4885	broad.mit.edu	37	7	98254261	98254261	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:98254261C>T	uc003upl.2	+	3	848	c.671C>T	c.(670-672)GCG>GTG	p.A224V		NM_002523	NP_002514	P47972	NPTX2_HUMAN	neuronal pentraxin II precursor	224					synaptic transmission	extracellular region	metal ion binding|sugar binding			central_nervous_system(2)|skin(1)	3	all_cancers(62;2.28e-09)|all_epithelial(64;4.86e-10)|Esophageal squamous(72;0.00918)|Lung NSC(181;0.0128)|all_lung(186;0.0142)		STAD - Stomach adenocarcinoma(171;0.215)			TCACCAGATGCGTTCAAGGTG	0.602													46	153					0	0	0.003610	0	0	
TRRAP	8295	broad.mit.edu	37	7	98478778	98478778	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:98478778C>T	uc003upp.2	+	2	214	c.5C>T	c.(4-6)GCG>GTG	p.A2V	TRRAP_uc011kis.1_Missense_Mutation_p.A2V	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	2					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			AGAAAAATGGCGTTTGTTGCA	0.443													5	62					0	0	0.001984	0	0	
TRRAP	8295	broad.mit.edu	37	7	98519385	98519385	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:98519385C>T	uc003upp.2	+	21	2841	c.2632C>T	c.(2632-2634)CGC>TGC	p.R878C	TRRAP_uc011kis.1_Missense_Mutation_p.R878C|TRRAP_uc003upr.2_Missense_Mutation_p.R570C	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	878					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			GGCTCTGTGGCGCACCTTACG	0.483													6	99					0	0	0.001168	0	0	
TRRAP	8295	broad.mit.edu	37	7	98522829	98522829	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:98522829C>T	uc003upp.2	+	22	3127	c.2918C>T	c.(2917-2919)GCC>GTC	p.A973V	TRRAP_uc011kis.1_Missense_Mutation_p.A973V|TRRAP_uc003upr.2_Missense_Mutation_p.A665V	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	973					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			TTCCTGGTGGCCATGATGAGC	0.557													21	84					0	0	0.003330	0	0	
TRRAP	8295	broad.mit.edu	37	7	98528370	98528370	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:98528370C>T	uc003upp.2	+	25	3717	c.3508C>T	c.(3508-3510)CGG>TGG	p.R1170W	TRRAP_uc011kis.1_Missense_Mutation_p.R1170W|TRRAP_uc003upr.2_Missense_Mutation_p.R862W	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	1170					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			TCTCATGGAGCGGCTGCCTCT	0.507													5	37					0	0	0.001984	0	0	
TRRAP	8295	broad.mit.edu	37	7	98586514	98586514	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:98586514C>T	uc003upp.2	+	62	9737	c.9528C>T	c.(9526-9528)GGC>GGT	p.G3176G	TRRAP_uc011kis.1_Silent_p.G3147G|TRRAP_uc003upr.2_Silent_p.G2864G	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	3176	FAT.				histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			TGCACCTGGGCGTGTCTGCCA	0.562													8	17					0	0	0.003080	0	0	
SMURF1	57154	broad.mit.edu	37	7	98655043	98655043	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:98655043C>T	uc003upu.1	-	4	655	c.335G>A	c.(334-336)GGA>GAA	p.G112E	SMURF1_uc003upv.1_Missense_Mutation_p.G112E|SMURF1_uc003upt.2_Missense_Mutation_p.G112E	NM_020429	NP_065162	Q9HCE7	SMUF1_HUMAN	Smad ubiquitination regulatory factor 1 isoform	112					BMP signaling pathway|cell differentiation|ectoderm development|negative regulation of BMP signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of protein ubiquitination|proteasomal ubiquitin-dependent protein catabolic process|protein export from nucleus|protein localization at cell surface|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|receptor catabolic process|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent SMAD protein catabolic process	cytosol|plasma membrane	activin binding|I-SMAD binding|R-SMAD binding|ubiquitin-protein ligase activity			skin(2)|ovary(1)|lung(1)	4	all_cancers(62;1.05e-08)|all_epithelial(64;4.34e-09)|Lung NSC(181;0.00902)|all_lung(186;0.0145)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)|Lung(104;0.224)			GTTCTTACATCCGGTATCTTT	0.453													8	63					0	0	0.004482	0	0	
Unknown	0	broad.mit.edu	37	7	99581003	99581003	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:99581003A>G	uc003usi.2	+	2	324	c.313A>G	c.(313-315)ATG>GTG	p.M105V						RecName: Full=Putative zinc-alpha-2-glycoprotein-like 2; Flags: Precursor;																		GAACAACATCATGGAGTATTA	0.562													4	48					0	0	0.009096	0	0	
ZSCAN21	7589	broad.mit.edu	37	7	99662020	99662020	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:99662020C>T	uc003uso.2	+	4	1346	c.1202C>T	c.(1201-1203)GCG>GTG	p.A401V	ZSCAN21_uc003usn.1_Missense_Mutation_p.R366W|ZNF3_uc003usp.2_3'UTR	NM_145914	NP_666019	Q9Y5A6	ZSC21_HUMAN	zinc finger protein 38	401	C2H2-type 5.				positive regulation of transcription, DNA-dependent|viral reproduction	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3	Lung NSC(181;0.0211)|all_lung(186;0.0323)|Esophageal squamous(72;0.0439)		STAD - Stomach adenocarcinoma(171;0.129)			AGTCAGCATGCGGGCCTCAGC	0.522													9	90					0	0	0.008291	0	0	
STAG3	10734	broad.mit.edu	37	7	99808640	99808640	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:99808640C>T	uc003utx.1	+	30	3400	c.3245C>T	c.(3244-3246)GCC>GTC	p.A1082V	STAG3_uc011kjk.1_Missense_Mutation_p.A1024V|GATS_uc003uty.3_Intron|GATS_uc003utz.3_Intron|GATS_uc003uua.3_Intron|GATS_uc010lgt.2_Intron|STAG3_uc003uub.1_Missense_Mutation_p.A306V	NM_012447	NP_036579	Q9UJ98	STAG3_HUMAN	stromal antigen 3	1082					chromosome segregation|synaptonemal complex assembly	chromosome, centromeric region|meiotic cohesin complex|synaptonemal complex	binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					GCAGGGCCTGCCAAGCCTAAC	0.577													14	28					0	0	0.002450	0	0	
PILRB	29990	broad.mit.edu	37	7	99950995	99950995	+	Splice_Site	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:99950995G>T	uc003uuk.2	+	12	1542	c.-954_splice	c.e12-1		PILRB_uc003uul.2_Splice_Site|PILRB_uc003uum.1_Splice_Site	NM_013440	NP_038468	Q9UKJ0	PILRB_HUMAN	paired immunoglobulin-like type 2 receptor beta						activation of transmembrane receptor protein tyrosine kinase activity	integral to plasma membrane	protein binding|receptor activity				0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					CCCCCGCGCAGGCACCCAGCC	0.652													4	29					0.00024832	0.000259867	0.009096	1	0	
GNB2	2783	broad.mit.edu	37	7	100275127	100275127	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:100275127G>A	uc003uwb.2	+	6	547	c.274G>A	c.(274-276)GCC>ACC	p.A92T	GNB2_uc003uwc.2_Missense_Mutation_p.A48T|GNB2_uc010lhd.2_Missense_Mutation_p.A48T|GNB2_uc010lhe.2_Missense_Mutation_p.A48T|GNB2_uc003uwd.2_5'UTR|GNB2_uc010lhf.2_5'UTR|GNB2_uc003uwe.2_Missense_Mutation_p.A92T|GNB2_uc003uwf.2_5'UTR	NM_005273	NP_005264	P62879	GBB2_HUMAN	guanine nucleotide-binding protein, beta-2	92					cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|synaptic transmission	perinuclear region of cytoplasm|plasma membrane	GTPase activity|GTPase binding|signal transducer activity			ovary(2)	2	Lung NSC(181;0.035)|all_lung(186;0.0509)|Esophageal squamous(72;0.0817)	Ovarian(593;0.238)				GCAGGTCCACGCCATCCCGCT	0.677													11	29					0	0	0.008291	0	0	
GNB2	2783	broad.mit.edu	37	7	100275393	100275393	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:100275393G>A	uc003uwb.2	+	7	722	c.449G>A	c.(448-450)CGC>CAC	p.R150H	GNB2_uc003uwc.2_Missense_Mutation_p.R106H|GNB2_uc010lhd.2_Missense_Mutation_p.R106H|GNB2_uc010lhe.2_Missense_Mutation_p.R106H|GNB2_uc003uwd.2_Missense_Mutation_p.R50H|GNB2_uc010lhf.2_Missense_Mutation_p.R50H|GNB2_uc003uwe.2_Missense_Mutation_p.R150H|GNB2_uc003uwf.2_Missense_Mutation_p.R50H	NM_005273	NP_005264	P62879	GBB2_HUMAN	guanine nucleotide-binding protein, beta-2	150	WD 3.				cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|synaptic transmission	perinuclear region of cytoplasm|plasma membrane	GTPase activity|GTPase binding|signal transducer activity			ovary(2)	2	Lung NSC(181;0.035)|all_lung(186;0.0509)|Esophageal squamous(72;0.0817)	Ovarian(593;0.238)				TCGTGTTGCCGCTTCCTGGAT	0.627													7	32					0	0	0.001984	0	0	
ZAN	7455	broad.mit.edu	37	7	100352914	100352914	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:100352914C>T	uc003uwj.2	+	15	3355	c.3190C>T	c.(3190-3192)CCT>TCT	p.P1064S	ZAN_uc003uwk.2_Missense_Mutation_p.P1064S|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	1064	TIL 1.|Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			GAGCCCCAGGCCTAGCTGTGG	0.557													7	134					0	0	0.003080	0	0	
ZAN	7455	broad.mit.edu	37	7	100389759	100389759	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:100389759G>A	uc003uwj.2	+	42	7866	c.7701G>A	c.(7699-7701)GAG>GAA	p.E2567E	ZAN_uc003uwk.2_Silent_p.E2567E|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA|ZAN_uc011kke.1_Missense_Mutation_p.S560N	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	2567	Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			TGGCCCCAGAGCCCTTCCAAG	0.667													4	14					0	0	0.001168	0	0	
EPHB4	2050	broad.mit.edu	37	7	100421410	100421410	+	Silent	SNP	C	T	T	rs150582750		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:100421410C>T	uc003uwn.1	-	3	758	c.267G>A	c.(265-267)ACG>ACA	p.T89T	EPHB4_uc003uwm.1_5'UTR|EPHB4_uc010lhj.1_Silent_p.T89T|EPHB4_uc011kkf.1_Silent_p.T89T|EPHB4_uc011kkg.1_Silent_p.T89T|EPHB4_uc011kkh.1_Silent_p.T89T	NM_004444	NP_004435	P54760	EPHB4_HUMAN	EPH receptor B4 precursor	89	Extracellular (Potential).				cell proliferation|organ morphogenesis|regulation of angiogenesis	cell surface|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(4)|stomach(3)|skin(3)|central_nervous_system(2)|ovary(2)|breast(1)	15	Lung NSC(181;0.041)|all_lung(186;0.0581)					TGAAGCGCAGCGTGGCGTACA	0.672													13	14					0	0	0.002450	0	0	
SLC12A9	56996	broad.mit.edu	37	7	100459098	100459098	+	Silent	SNP	C	T	T	rs113249714	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:100459098C>T	uc003uwp.2	+	11	1570	c.1428C>T	c.(1426-1428)GGC>GGT	p.G476G	SLC12A9_uc003uwq.2_Silent_p.G387G|SLC12A9_uc011kki.1_Silent_p.G7G|SLC12A9_uc003uwr.2_Silent_p.G212G|SLC12A9_uc003uws.2_Silent_p.G7G|SLC12A9_uc003uwt.2_Silent_p.G212G|SLC12A9_uc003uwv.2_Silent_p.G7G	NM_020246	NP_064631	Q9BXP2	S12A9_HUMAN	solute carrier family 12 (potassium/chloride	476	Helical; (Potential).					integral to membrane|plasma membrane	cation:chloride symporter activity				0	Lung NSC(181;0.041)|all_lung(186;0.0581)					TCAGTCCTGGCGCGGCTGGTG	0.667													22	31					0	0	0.002096	0	0	
SLC12A9	56996	broad.mit.edu	37	7	100460410	100460410	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:100460410C>T	uc003uwp.2	+	13	1961	c.1819C>T	c.(1819-1821)CGC>TGC	p.R607C	SLC12A9_uc003uwq.2_Missense_Mutation_p.R518C|SLC12A9_uc011kki.1_Missense_Mutation_p.R138C|SLC12A9_uc003uwr.2_Missense_Mutation_p.R343C|SLC12A9_uc003uws.2_Missense_Mutation_p.R138C|SLC12A9_uc003uwt.2_Missense_Mutation_p.R343C|SLC12A9_uc003uwv.2_Missense_Mutation_p.R138C	NM_020246	NP_064631	Q9BXP2	S12A9_HUMAN	solute carrier family 12 (potassium/chloride	607	Extracellular (Potential).					integral to membrane|plasma membrane	cation:chloride symporter activity				0	Lung NSC(181;0.041)|all_lung(186;0.0581)					ACCCTCCGTGCGCCAGGGGGC	0.637													13	64					0	0	0.001368	0	0	
SRRT	51593	broad.mit.edu	37	7	100485018	100485018	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:100485018G>A	uc003uwy.2	+	17	2321	c.2053G>A	c.(2053-2055)GCC>ACC	p.A685T	SRRT_uc010lhl.1_Missense_Mutation_p.A684T|SRRT_uc003uxa.2_Missense_Mutation_p.A684T|SRRT_uc003uwz.2_Missense_Mutation_p.A685T	NM_015908	NP_056992	Q9BXP5	SRRT_HUMAN	arsenate resistance protein 2 isoform a	685					cell proliferation|primary miRNA processing|response to arsenic-containing substance	cytoplasm|nucleoplasm	protein binding			ovary(2)	2						AGAGGAAGAGGCCCAGAAGAT	0.562													21	58					0	0	0.001882	0	0	
ACHE	43	broad.mit.edu	37	7	100491577	100491577	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:100491577C>T	uc003uxd.2	-	1	433	c.277G>A	c.(277-279)GCT>ACT	p.A93T	ACHE_uc003uxe.2_Missense_Mutation_p.A93T|ACHE_uc003uxf.2_Missense_Mutation_p.A93T|ACHE_uc003uxg.2_Missense_Mutation_p.A93T|ACHE_uc003uxh.2_Missense_Mutation_p.A93T|ACHE_uc003uxi.2_Missense_Mutation_p.A93T|ACHE_uc003uxj.1_Missense_Mutation_p.A212T	NM_000665	NP_000656	P22303	ACES_HUMAN	acetylcholinesterase isoform E4-E6 precursor	93					acetylcholine catabolic process in synaptic cleft|amyloid precursor protein metabolic process|cell adhesion|cell proliferation|choline metabolic process|DNA replication|muscle organ development|neurotransmitter biosynthetic process|osteoblast development|positive regulation of protein secretion|regulation of axonogenesis|regulation of dendrite morphogenesis|response to wounding|synapse assembly	anchored to membrane|axon|basal lamina|cell junction|cell surface|dendrite|endoplasmic reticulum lumen|extracellular space|Golgi apparatus|neuromuscular junction|nucleus|perinuclear region of cytoplasm|postsynaptic membrane|presynaptic membrane|synaptic cleft	acetylcholine binding|acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|collagen binding|laminin-1 binding|protein homodimerization activity|serine hydrolase activity			skin(2)	2	Lung NSC(181;0.041)|all_lung(186;0.0581)				Ambenonium(DB01122)|Atropine(DB00572)|Choline(DB00122)|Decamethonium(DB01245)|Demecarium bromide(DB00944)|Donepezil(DB00843)|Edrophonium(DB01010)|Ephedrine(DB01364)|Galantamine(DB00674)|Gallamine Triethiodide(DB00483)|Isoflurophate(DB00677)|Neostigmine(DB01400)|Physostigmine(DB00981)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Tacrine(DB00382)|Tubocurarine(DB01199)	AAGGTTGTAGCGTCTACCACC	0.592													11	28					0	0	0.002450	0	0	
MUC12	10071	broad.mit.edu	37	7	100648525	100648525	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:100648525C>T	uc003uxo.2	+	1	451	c.413C>T	c.(412-414)GCC>GTC	p.A138V				Q9UKN1	MUC12_HUMAN	SubName: Full=MUC12 protein; Flags: Fragment;	4894											0						GTGTTACCTGCCACCCTCACA	0.522													3	6					0	0	0.004672	0	0	
MUC17	140453	broad.mit.edu	37	7	100675395	100675395	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:100675395C>T	uc003uxp.1	+	3	751	c.698C>T	c.(697-699)GCT>GTT	p.A233V	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	233	Extracellular (Potential).|1.|59 X approximate tandem repeats.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					AGTTCAGAGGCTATCACCCTT	0.488													21	195					0	0	0.002780	0	0	
MUC17	140453	broad.mit.edu	37	7	100676841	100676841	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:100676841C>T	uc003uxp.1	+	3	2197	c.2144C>T	c.(2143-2145)ACC>ATC	p.T715I	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	715	Extracellular (Potential).|9.|59 X approximate tandem repeats.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					CCTGTTGACACCAGCACACCT	0.498													42	381					0	0	0.009718	0	0	
MUC17	140453	broad.mit.edu	37	7	100679587	100679587	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:100679587T>C	uc003uxp.1	+	3	4943	c.4890T>C	c.(4888-4890)AGT>AGC	p.S1630S	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	1630	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|25.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					GTGAAGGAAGTCCTCTATTAA	0.493													5	302					0	0	0.004482	0	0	
MUC17	140453	broad.mit.edu	37	7	100681920	100681921	+	Missense_Mutation	DNP	CG	TT	TT	rs140211048	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:100681920_100681921CG>TT	uc003uxp.1	+	3	7276_7277	c.7223_7224CG>TT	c.(7222-7224)CCG>CTT	p.P2408L	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	2408	Extracellular (Potential).|59 X approximate tandem repeats.|38.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					AGCACCATGCCGGTGGTCAGTT	0.515													44	424					0	0	0.004672	0	0	
MUC17	140453	broad.mit.edu	37	7	100684849	100684849	+	Silent	SNP	T	C	C	rs35584551		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:100684849T>C	uc003uxp.1	+	3	10205	c.10152T>C	c.(10150-10152)GCT>GCC	p.A3384A	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	3384	Extracellular (Potential).|55.|59 X approximate tandem repeats.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					CTACAACTGCTGAAGGTACCA	0.507													11	403					0	0	0.001855	0	0	
CUX1	1523	broad.mit.edu	37	7	101559425	101559425	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:101559425G>A	uc003uyx.3	+	2	99	c.61G>A	c.(61-63)GCG>ACG	p.A21T	CUX1_uc003uys.3_Missense_Mutation_p.A32T|CUX1_uc003uyt.2_Missense_Mutation_p.A32T|CUX1_uc011kkn.1_Intron|CUX1_uc003uyw.2_Missense_Mutation_p.A32T|CUX1_uc003uyv.2_Missense_Mutation_p.A32T|CUX1_uc003uyu.2_Missense_Mutation_p.A32T	NM_181552	NP_853530	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform a	21	Potential.				negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						AACGGTATTGGCGAACCGGCA	0.517													44	125					0	0	0.003610	0	0	
CUX1	1523	broad.mit.edu	37	7	101917564	101917564	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:101917564C>T	uc003uyt.2	+	16	1452	c.1433C>T	c.(1432-1434)GCC>GTC	p.A478V	CUX1_uc011kkn.1_Missense_Mutation_p.A439V|CUX1_uc003uyw.2_Missense_Mutation_p.A432V|CUX1_uc003uyv.2_Missense_Mutation_p.A462V|CUX1_uc003uyu.2_Missense_Mutation_p.A476V|CUX1_uc003uyz.2_RNA	NM_001913	NP_001904	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform b	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						ATCAAAGAGGCCACTGCCCTA	0.602													20	52					0	0	0.010504	0	0	
LRWD1	222229	broad.mit.edu	37	7	102106665	102106665	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:102106665C>T	uc003uzn.2	+	3	518	c.380C>T	c.(379-381)GCG>GTG	p.A127V	ALKBH4_uc003uzl.2_5'Flank|ALKBH4_uc003uzm.2_5'Flank|LRWD1_uc003uzo.2_5'UTR	NM_152892	NP_690852	Q9UFC0	LRWD1_HUMAN	leucine-rich repeats and WD repeat domain	127					chromatin modification|DNA-dependent DNA replication initiation|establishment of protein localization to chromatin|G1 phase of mitotic cell cycle	centromeric heterochromatin|nuclear origin of replication recognition complex|telomeric heterochromatin	chromatin binding|methyl-CpG binding|methylated histone residue binding			skin(1)	1						GGCAAGGATGCGTCCTCAACT	0.542													22	72					0	0	0.004656	0	0	
SLC26A5	375611	broad.mit.edu	37	7	103030938	103030938	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:103030938C>A	uc003vbz.2	-	12	1485	c.1249G>T	c.(1249-1251)GCC>TCC	p.A417S	SLC26A5_uc003vbt.1_Missense_Mutation_p.A417S|SLC26A5_uc003vbu.1_Missense_Mutation_p.A417S|SLC26A5_uc003vbv.1_Intron|SLC26A5_uc003vbw.2_RNA|SLC26A5_uc003vbx.2_Missense_Mutation_p.A417S|SLC26A5_uc003vby.2_RNA|SLC26A5_uc010liy.2_Intron	NM_198999	NP_945350	P58743	S26A5_HUMAN	prestin isoform a	417	Helical; Name=10; (Potential).				regulation of cell shape|sensory perception of sound	integral to membrane	secondary active sulfate transmembrane transporter activity			ovary(1)	1						ATTAATGAGGCCAAACAACCT	0.408													12	117					4.36969e-10	4.6962e-10	0.001855	1	0	
RELN	5649	broad.mit.edu	37	7	103629618	103629618	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:103629618C>T	uc003vca.2	-	1	346	c.186G>A	c.(184-186)GCG>GCA	p.A62A	RELN_uc010liz.2_Silent_p.A62A	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	62	Reelin.				axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		TGGGGTTGCCCGCAATATGCA	0.637													14	40					0	0	0.004007	0	0	
MLL5	55904	broad.mit.edu	37	7	104747108	104747108	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:104747108G>A	uc003vcm.2	+	20	3270	c.2736G>A	c.(2734-2736)ACG>ACA	p.T912T	MLL5_uc010ljc.2_Silent_p.T912T|MLL5_uc010lje.1_Intron|MLL5_uc010ljf.1_5'Flank|MLL5_uc010ljg.2_5'Flank|MLL5_uc010ljh.1_5'Flank	NM_182931	NP_891847	Q8IZD2	MLL5_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 5	912					cell cycle arrest|cellular response to retinoic acid|DNA methylation|erythrocyte differentiation|neutrophil activation|neutrophil mediated immunity|positive regulation of granulocyte differentiation|positive regulation of transcription, DNA-dependent|retinoic acid receptor signaling pathway|transcription, DNA-dependent	MLL5-L complex|nuclear speck	enzyme binding|histone methyltransferase activity (H3-K4 specific)|transcription coactivator activity|zinc ion binding			ovary(2)|pancreas(1)	3						CTTTTGCCACGCCTCCACGGA	0.443													45	149					0	0	0.003610	0	0	
MLL5	55904	broad.mit.edu	37	7	104753201	104753201	+	Silent	SNP	G	A	A	rs147477523		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:104753201G>A	uc003vcm.2	+	27	5532	c.4998G>A	c.(4996-4998)TCG>TCA	p.S1666S	MLL5_uc010ljc.2_Silent_p.S1666S|MLL5_uc010ljf.1_Intron|MLL5_uc010ljg.2_Silent_p.S400S	NM_182931	NP_891847	Q8IZD2	MLL5_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 5	1666	Pro-rich.				cell cycle arrest|cellular response to retinoic acid|DNA methylation|erythrocyte differentiation|neutrophil activation|neutrophil mediated immunity|positive regulation of granulocyte differentiation|positive regulation of transcription, DNA-dependent|retinoic acid receptor signaling pathway|transcription, DNA-dependent	MLL5-L complex|nuclear speck	enzyme binding|histone methyltransferase activity (H3-K4 specific)|transcription coactivator activity|zinc ion binding			ovary(2)|pancreas(1)	3						CCCCTGGGTCGCATATTCATT	0.582													6	54					0	0	0.001984	0	0	
SRPK2	6733	broad.mit.edu	37	7	104783607	104783607	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:104783607G>A	uc003vct.2	-	9	1138	c.951C>T	c.(949-951)GGC>GGT	p.G317G	SRPK2_uc003vcu.2_Silent_p.G317G|SRPK2_uc003vcv.2_Silent_p.G328G|SRPK2_uc003vcw.1_Silent_p.G317G	NM_182691	NP_872633	P78362	SRPK2_HUMAN	serine/arginine-rich protein-specific kinase 2	317	Protein kinase.				angiogenesis|cell differentiation|intracellular protein kinase cascade|negative regulation of viral genome replication|nuclear speck organization|positive regulation of cell cycle|positive regulation of cell proliferation|positive regulation of gene expression|positive regulation of neuron apoptosis|positive regulation of viral genome replication|spliceosome assembly	cytoplasm|nucleolus	14-3-3 protein binding|ATP binding|magnesium ion binding|protein serine/threonine kinase activity	p.G317D(1)		central_nervous_system(3)|ovary(2)|upper_aerodigestive_tract(1)	6						GGCAGTATTCGCCATCCTGGT	0.502													15	77					0	0	0.004007	0	0	
SRPK2	6733	broad.mit.edu	37	7	104807824	104807824	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:104807824G>A	uc003vct.2	-	5	668	c.481C>T	c.(481-483)CAT>TAT	p.H161Y	SRPK2_uc003vcu.2_Missense_Mutation_p.H161Y|SRPK2_uc003vcv.2_Missense_Mutation_p.H172Y|SRPK2_uc003vcw.1_Missense_Mutation_p.H161Y	NM_182691	NP_872633	P78362	SRPK2_HUMAN	serine/arginine-rich protein-specific kinase 2	161	Protein kinase.				angiogenesis|cell differentiation|intracellular protein kinase cascade|negative regulation of viral genome replication|nuclear speck organization|positive regulation of cell cycle|positive regulation of cell proliferation|positive regulation of gene expression|positive regulation of neuron apoptosis|positive regulation of viral genome replication|spliceosome assembly	cytoplasm|nucleolus	14-3-3 protein binding|ATP binding|magnesium ion binding|protein serine/threonine kinase activity			central_nervous_system(3)|ovary(2)|upper_aerodigestive_tract(1)	6						TAAAGGATACGTATCCCATTC	0.368													6	83					0	0	0.004482	0	0	
CDHR3	222256	broad.mit.edu	37	7	105662698	105662698	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:105662698G>A	uc003vdl.3	+	14	1988	c.1880G>A	c.(1879-1881)CGC>CAC	p.R627H	CDHR3_uc003vdk.2_Intron|CDHR3_uc003vdm.3_Missense_Mutation_p.R614H|CDHR3_uc011klt.1_Missense_Mutation_p.R539H|CDHR3_uc003vdn.2_Intron	NM_152750	NP_689963	Q6ZTQ4	CDHR3_HUMAN	hypothetical protein LOC222256 precursor	627	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						AATGTCACACGCCTGCTGCTT	0.438													7	128					0	0	0.004482	0	0	
HBP1	26959	broad.mit.edu	37	7	106827054	106827054	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:106827054G>A	uc003vdy.2	+	6	879	c.693G>A	c.(691-693)TGG>TGA	p.W231*	HBP1_uc011klv.1_Nonsense_Mutation_p.W241*|HBP1_uc003vdz.2_Nonsense_Mutation_p.W231*|HBP1_uc003vea.2_Nonsense_Mutation_p.W231*|HBP1_uc003veb.1_Nonsense_Mutation_p.W231*	NM_012257	NP_036389	O60381	HBP1_HUMAN	HMG-box transcription factor 1	231	AXH.				cell cycle arrest|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	DNA binding			skin(1)	1						ATAAGGAATGGCAAGATGTTG	0.373													22	87					0	0	0.003954	0	0	
GPR22	2845	broad.mit.edu	37	7	107115658	107115658	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:107115658C>T	uc003vef.2	+	3	2499	c.1153C>T	c.(1153-1155)CGA>TGA	p.R385*	COG5_uc003vec.2_Intron|COG5_uc003ved.2_Intron|COG5_uc003vee.2_Intron	NM_005295	NP_005286	Q99680	GPR22_HUMAN	G protein-coupled receptor 22	385	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity			ovary(2)	2						AATGAAAAAGCGAGTTGTTTC	0.313													24	60					0	0	0.003330	0	0	
SLC26A4	5172	broad.mit.edu	37	7	107323732	107323732	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:107323732C>T	uc003vep.2	+	7	1075	c.851C>T	c.(850-852)GCA>GTA	p.A284V		NM_000441	NP_000432	O43511	S26A4_HUMAN	pendrin	284	Helical; (Potential).				regulation of pH|regulation of protein localization|sensory perception of sound	apical plasma membrane|integral to membrane	chloride transmembrane transporter activity|inorganic anion exchanger activity|iodide transmembrane transporter activity|secondary active sulfate transmembrane transporter activity			ovary(3)|central_nervous_system(2)|skin(2)	7						GTCTGTATGGCAGTTAAGGAA	0.353									Pendred_syndrome				21	69					0	0	0.003330	0	0	
SLC26A4	5172	broad.mit.edu	37	7	107334884	107334884	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:107334884G>A	uc003vep.2	+	11	1524	c.1300G>A	c.(1300-1302)GCC>ACC	p.A434T	SLC26A4_uc011kmb.1_Missense_Mutation_p.A21T|SLC26A4_uc011kmc.1_Intron|SLC26A4_uc011kmd.1_Missense_Mutation_p.A3T	NM_000441	NP_000432	O43511	S26A4_HUMAN	pendrin	434	Helical; (Potential).				regulation of pH|regulation of protein localization|sensory perception of sound	apical plasma membrane|integral to membrane	chloride transmembrane transporter activity|inorganic anion exchanger activity|iodide transmembrane transporter activity|secondary active sulfate transmembrane transporter activity			ovary(3)|central_nervous_system(2)|skin(2)	7						TGTGATGATCGCCATTCTTGC	0.498									Pendred_syndrome				9	55					0	0	0.000978	0	0	
LAMB1	3912	broad.mit.edu	37	7	107605020	107605020	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:107605020C>A	uc003vew.2	-	14	2010	c.1675G>T	c.(1675-1677)GCG>TCG	p.A559S	LAMB1_uc003vev.2_Missense_Mutation_p.A583S|LAMB1_uc003vex.2_Missense_Mutation_p.A559S|LAMB1_uc010ljn.1_Missense_Mutation_p.A645S	NM_002291	NP_002282	P07942	LAMB1_HUMAN	laminin, beta 1 precursor	559	Laminin IV type B.				axon guidance|odontogenesis|positive regulation of cell migration|positive regulation of epithelial cell proliferation|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-2 complex|laminin-8 complex|perinuclear region of cytoplasm	extracellular matrix structural constituent			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	8					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GCTTCCTCCGCTTCATAGAGG	0.532													6	134					8.12818e-05	8.5301e-05	0.001984	1	0	
LAMB4	22798	broad.mit.edu	37	7	107671311	107671311	+	Silent	SNP	G	A	A	rs138458523		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:107671311G>A	uc010ljo.1	-	32	5016	c.4932C>T	c.(4930-4932)CAC>CAT	p.H1644H	LAMB4_uc003vey.2_Silent_p.H1644H|LAMB4_uc010ljp.1_Silent_p.H613H	NM_007356	NP_031382	A4D0S4	LAMB4_HUMAN	laminin, beta 4 precursor	1644	Potential.|Domain I.				cell adhesion	basement membrane				ovary(4)|breast(2)|large_intestine(1)|skin(1)	8						CATTGACAGCGTGGTCTTGAT	0.522													13	127					0	0	0.002450	0	0	
DOCK4	9732	broad.mit.edu	37	7	111407090	111407090	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:111407090G>A	uc003vfx.2	-	37	4155	c.3886C>T	c.(3886-3888)CGG>TGG	p.R1296W	DOCK4_uc011kml.1_Missense_Mutation_p.R177W|DOCK4_uc011kmm.1_Missense_Mutation_p.R203W|DOCK4_uc003vfw.2_Missense_Mutation_p.R746W|DOCK4_uc003vfy.2_Missense_Mutation_p.R1341W	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	1296	DHR-2.				cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				CACCTTACCCGCATCTTGCTC	0.443													41	100					0	0	0.007835	0	0	
DOCK4	9732	broad.mit.edu	37	7	111409619	111409619	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:111409619T>C	uc003vfx.2	-	36	4036	c.3767A>G	c.(3766-3768)CAC>CGC	p.H1256R	DOCK4_uc011kml.1_Missense_Mutation_p.H137R|DOCK4_uc011kmm.1_Missense_Mutation_p.H163R|DOCK4_uc003vfw.2_Missense_Mutation_p.H706R|DOCK4_uc003vfy.2_Missense_Mutation_p.H1301R	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	1256	DHR-2.				cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				GATGGTGAGGTGCAGGTGCTC	0.562													5	33					0	0	0.001984	0	0	
DOCK4	9732	broad.mit.edu	37	7	111617195	111617195	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:111617195C>T	uc003vfx.2	-	8	962	c.693G>A	c.(691-693)CGG>CGA	p.R231R	DOCK4_uc003vfy.2_Silent_p.R231R|DOCK4_uc003vga.1_5'UTR|DOCK4_uc010ljt.1_Silent_p.R231R|DOCK4_uc003vgb.1_Silent_p.R155R	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	231					cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				ACCTGATTGGCCGGTTCTCTT	0.443													7	30					0	0	0.001984	0	0	
DOCK4	9732	broad.mit.edu	37	7	111629103	111629103	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:111629103C>T	uc003vfx.2	-	6	700	c.431G>A	c.(430-432)CGC>CAC	p.R144H	DOCK4_uc003vfy.2_Missense_Mutation_p.R144H|DOCK4_uc003vga.1_5'UTR|DOCK4_uc010ljt.1_Missense_Mutation_p.R144H|DOCK4_uc003vgb.1_Missense_Mutation_p.R68H	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	144					cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				AGTAATGTGGCGCTTCACGTC	0.577													4	20					0	0	0.000602	0	0	
DOCK4	9732	broad.mit.edu	37	7	111629121	111629121	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:111629121C>T	uc003vfx.2	-	6	682	c.413G>A	c.(412-414)CGG>CAG	p.R138Q	DOCK4_uc003vfy.2_Missense_Mutation_p.R138Q|DOCK4_uc003vga.1_5'UTR|DOCK4_uc010ljt.1_Missense_Mutation_p.R138Q|DOCK4_uc003vgb.1_Missense_Mutation_p.R62Q	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	138					cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				GTCCTTCATCCGGTCGTGGGT	0.567													11	22					0	0	0.008291	0	0	
TMEM168	64418	broad.mit.edu	37	7	112424684	112424684	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:112424684A>G	uc003vgn.2	-	2	589	c.197T>C	c.(196-198)GTA>GCA	p.V66A	TMEM168_uc010lju.2_Missense_Mutation_p.V66A|TMEM168_uc011kmr.1_Intron	NM_022484	NP_071929	Q9H0V1	TM168_HUMAN	transmembrane protein 168	66	Helical; (Potential).					integral to membrane|transport vesicle				ovary(1)|central_nervous_system(1)	2						AATAAAAATTACCAAAATTAA	0.343													4	67					0	0	0.001168	0	0	
GPR85	54329	broad.mit.edu	37	7	112724294	112724294	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:112724294G>A	uc010ljv.2	-	2	1000	c.483C>T	c.(481-483)GGC>GGT	p.G161G	GPR85_uc003vgp.1_Silent_p.G161G|GPR85_uc003vgq.2_Silent_p.G161G|GPR85_uc010ljw.1_Silent_p.G161G	NM_001146266	NP_001139738	P60893	GPR85_HUMAN	G protein-coupled receptor 85	161	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|central_nervous_system(1)	2						ATGAGTAAGTGCCCACGTCTA	0.488													7	83					0	0	0.003080	0	0	
PPP1R3A	5506	broad.mit.edu	37	7	113558291	113558291	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:113558291C>T	uc010ljy.1	-	1	792	c.761G>A	c.(760-762)GGC>GAC	p.G254D		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	254					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						CTTTAAGCAGCCTTTTATTTG	0.294													26	119					0	0	0.006320	0	0	
PPP1R3A	5506	broad.mit.edu	37	7	113558550	113558550	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:113558550T>A	uc010ljy.1	-	1	533	c.502A>T	c.(502-504)ACA>TCA	p.T168S		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	168	CBM21.				glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						TCATAATGTGTCTGCCAGTCA	0.343													18	53					0	0	0.004990	0	0	
MET	4233	broad.mit.edu	37	7	116340097	116340097	+	Missense_Mutation	SNP	C	T	T	rs35776110	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:116340097C>T	uc003vij.2	+	2	1146	c.959C>T	c.(958-960)GCG>GTG	p.A320V	MET_uc010lkh.2_Missense_Mutation_p.A320V|MET_uc011knc.1_Missense_Mutation_p.A320V|MET_uc011knd.1_Missense_Mutation_p.A320V|MET_uc011kne.1_Missense_Mutation_p.A320V|MET_uc011knf.1_Missense_Mutation_p.A320V|MET_uc011kng.1_Missense_Mutation_p.A320V|MET_uc011knh.1_Missense_Mutation_p.A320V|MET_uc011kni.1_Missense_Mutation_p.A320V|MET_uc003vii.1_Missense_Mutation_p.A339V|MET_uc010lkg.2_Missense_Mutation_p.A320V|MET_uc011kmz.1_Missense_Mutation_p.A320V|MET_uc011kna.1_Missense_Mutation_p.A320V|MET_uc011knb.1_Missense_Mutation_p.A320V	NM_000245	NP_000236	P08581	MET_HUMAN	met proto-oncogene isoform b precursor	320	Extracellular (Potential).|Sema.				axon guidance|cell proliferation	basal plasma membrane|integral to plasma membrane	ATP binding|hepatocyte growth factor receptor activity|protein binding			upper_aerodigestive_tract(63)|lung(41)|kidney(18)|NS(10)|ovary(5)|thyroid(4)|central_nervous_system(4)|stomach(3)|liver(3)|pleura(2)|large_intestine(2)|breast(2)|testis(1)|skin(1)	159	all_cancers(3;1.25e-07)|all_epithelial(6;4.07e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)	Ovarian(593;0.133)	GBM - Glioblastoma multiforme(2;2.31e-07)|all cancers(2;0.000419)|STAD - Stomach adenocarcinoma(10;0.000512)			CTTCAGGCTGCGTATGTCAGC	0.453			Mis		papillary renal|head-neck squamous cell 	papillary renal			Hereditary_Papillary_Renal_Carcinoma_(type_1)				10	48					0	0	0.006214	0	0	
MET	4233	broad.mit.edu	37	7	116340317	116340317	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:116340317T>A	uc003vij.2	+	2	1366	c.1179T>A	c.(1177-1179)AAT>AAA	p.N393K	MET_uc010lkh.2_Missense_Mutation_p.N393K|MET_uc011knc.1_Missense_Mutation_p.N393K|MET_uc011knd.1_Missense_Mutation_p.N393K|MET_uc011kne.1_Missense_Mutation_p.N393K|MET_uc011knf.1_Missense_Mutation_p.N393K|MET_uc011kng.1_Missense_Mutation_p.N393K|MET_uc011knh.1_Missense_Mutation_p.N393K|MET_uc011kni.1_Missense_Mutation_p.N393K|MET_uc003vii.1_Missense_Mutation_p.N412K|MET_uc010lkg.2_Missense_Mutation_p.N393K|MET_uc011kmz.1_Missense_Mutation_p.N393K|MET_uc011kna.1_Missense_Mutation_p.N393K|MET_uc011knb.1_Missense_Mutation_p.N393K	NM_000245	NP_000236	P08581	MET_HUMAN	met proto-oncogene isoform b precursor	393	Extracellular (Potential).|Sema.				axon guidance|cell proliferation	basal plasma membrane|integral to plasma membrane	ATP binding|hepatocyte growth factor receptor activity|protein binding			upper_aerodigestive_tract(63)|lung(41)|kidney(18)|NS(10)|ovary(5)|thyroid(4)|central_nervous_system(4)|stomach(3)|liver(3)|pleura(2)|large_intestine(2)|breast(2)|testis(1)|skin(1)	159	all_cancers(3;1.25e-07)|all_epithelial(6;4.07e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)	Ovarian(593;0.133)	GBM - Glioblastoma multiforme(2;2.31e-07)|all cancers(2;0.000419)|STAD - Stomach adenocarcinoma(10;0.000512)			ACGGACCCAATCATGAGCACT	0.378			Mis		papillary renal|head-neck squamous cell 	papillary renal			Hereditary_Papillary_Renal_Carcinoma_(type_1)				11	115					0	0	0.001368	0	0	
MET	4233	broad.mit.edu	37	7	116417481	116417481	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:116417481A>G	uc003vij.2	+	16	3485	c.3298A>G	c.(3298-3300)AAT>GAT	p.N1100D	MET_uc010lkh.2_Missense_Mutation_p.N1118D|MET_uc011knj.1_Missense_Mutation_p.N670D	NM_000245	NP_000236	P08581	MET_HUMAN	met proto-oncogene isoform b precursor	1100	Protein kinase.|Cytoplasmic (Potential).				axon guidance|cell proliferation	basal plasma membrane|integral to plasma membrane	ATP binding|hepatocyte growth factor receptor activity|protein binding	p.N1118Y(1)|p.Q1029_G1105del(1)		upper_aerodigestive_tract(63)|lung(41)|kidney(18)|NS(10)|ovary(5)|thyroid(4)|central_nervous_system(4)|stomach(3)|liver(3)|pleura(2)|large_intestine(2)|breast(2)|testis(1)|skin(1)	159	all_cancers(3;1.25e-07)|all_epithelial(6;4.07e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)	Ovarian(593;0.133)	GBM - Glioblastoma multiforme(2;2.31e-07)|all cancers(2;0.000419)|STAD - Stomach adenocarcinoma(10;0.000512)			TTTGTTGGACAATGATGGCAA	0.333			Mis		papillary renal|head-neck squamous cell 	papillary renal			Hereditary_Papillary_Renal_Carcinoma_(type_1)				28	73					0	0	0.003271	0	0	
CTTNBP2	83992	broad.mit.edu	37	7	117501313	117501313	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:117501313C>T	uc003vjf.2	-	2	231	c.139G>A	c.(139-141)GTG>ATG	p.V47M		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	47										ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		CCTTCCATCACGCTGAGGAGC	0.473													5	16					0	0	0.003080	0	0	
KCND2	3751	broad.mit.edu	37	7	119915461	119915461	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:119915461C>T	uc003vjj.1	+	1	1740	c.775C>T	c.(775-777)CGT>TGT	p.R259C		NM_012281	NP_036413	Q9NZV8	KCND2_HUMAN	potassium voltage-gated channel, Shal-related	259	Cytoplasmic (Potential).				regulation of action potential|synaptic transmission	cell surface|dendritic spine	metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5	all_neural(327;0.117)					CCGTTTTGTGCGTAGTGTCAT	0.527													19	45					0	0	0.007413	0	0	
CADPS2	93664	broad.mit.edu	37	7	122261687	122261687	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:122261687C>T	uc010lkp.2	-	5	1115	c.952G>A	c.(952-954)GCC>ACC	p.A318T	CADPS2_uc003vkg.3_Missense_Mutation_p.A18T|CADPS2_uc010lkq.2_Missense_Mutation_p.A318T	NM_017954	NP_060424	Q86UW7	CAPS2_HUMAN	Ca2+-dependent activator protein for secretion 2	318					exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|synapse	lipid binding|metal ion binding			ovary(1)|central_nervous_system(1)	2						TCCAAATTGGCCATTAGCAAA	0.328													17	54					0	0	0.006122	0	0	
IQUB	154865	broad.mit.edu	37	7	123109382	123109382	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:123109382C>T	uc003vkn.2	-	9	2044	c.1467G>A	c.(1465-1467)ACG>ACA	p.T489T	IQUB_uc003vko.2_Silent_p.T489T|IQUB_uc010lkt.2_RNA|IQUB_uc003vkp.1_Silent_p.T489T	NM_178827	NP_849149	Q8NA54	IQUB_HUMAN	IQ motif and ubiquitin domain containing	489										ovary(3)|large_intestine(1)	4						TGGTGAACTGCGTATCCATCT	0.343													21	76					0	0	0.004656	0	0	
ASB15	142685	broad.mit.edu	37	7	123269456	123269456	+	Nonsense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:123269456G>T	uc003vku.1	+	10	1700	c.1408G>T	c.(1408-1410)GGA>TGA	p.G470*	ASB15_uc003vkw.1_Nonsense_Mutation_p.G470*	NM_080928	NP_563616	Q8WXK1	ASB15_HUMAN	ankyrin repeat and SOCS box-containing 15	470					intracellular signal transduction					skin(2)|lung(1)	3						GGTGCTGCCAGGATGGACATC	0.383													5	116					1.024e-07	1.09331e-07	0.000602	1	0	
SPAM1	6677	broad.mit.edu	37	7	123593822	123593822	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:123593822G>T	uc003vld.2	+	4	600	c.198G>T	c.(196-198)GAG>GAT	p.E66D	SPAM1_uc003vle.2_Missense_Mutation_p.E66D|SPAM1_uc011koa.1_5'Flank|SPAM1_uc003vlf.3_Missense_Mutation_p.E66D|SPAM1_uc010lku.2_Missense_Mutation_p.E66D	NM_153189	NP_694859	P38567	HYALP_HUMAN	sperm adhesion molecule 1 isoform 2	66					binding of sperm to zona pellucida|carbohydrate metabolic process|cell adhesion|fusion of sperm to egg plasma membrane	anchored to membrane|plasma membrane	hyalurononglucosaminidase activity			ovary(3)|kidney(1)	4					Hyaluronidase(DB00070)	AATTTGATGAGCCACTAGATA	0.443													18	46					1.96292e-10	2.11133e-10	0.010504	1	0	
POT1	25913	broad.mit.edu	37	7	124482994	124482994	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:124482994C>T	uc003vlm.2	-	13	1631	c.1030G>A	c.(1030-1032)GAG>AAG	p.E344K	POT1_uc011koe.1_RNA|POT1_uc003vlk.2_RNA|POT1_uc003vll.2_RNA|POT1_uc003vlo.2_Missense_Mutation_p.E213K|POT1_uc003vln.2_RNA	NM_015450	NP_056265	Q9NUX5	POTE1_HUMAN	protection of telomeres 1 isoform 1	344					DNA duplex unwinding|negative regulation of telomere maintenance via telomerase|positive regulation of DNA strand elongation|positive regulation of helicase activity|positive regulation of telomerase activity|positive regulation of telomere maintenance via telomerase|telomere capping|telomere formation via telomerase|telomere maintenance via telomerase	nuclear telomere cap complex|nucleoplasm	DEAD/H-box RNA helicase binding|single-stranded telomeric DNA binding|telomerase inhibitor activity			central_nervous_system(1)	1						GGTGTCCTCTCCAAATACTGA	0.348													5	31					0	0	0.000602	0	0	
GRM8	2918	broad.mit.edu	37	7	126173421	126173421	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:126173421C>T	uc003vlr.2	-	8	2326	c.2015G>A	c.(2014-2016)CGT>CAT	p.R672H	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Missense_Mutation_p.R672H|GRM8_uc010lkz.1_RNA	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	672	Cytoplasmic (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	TCGGTGGATACGGTTTGTTTT	0.493										HNSCC(24;0.065)			6	75					0	0	0.006214	0	0	
MIR592	693177	broad.mit.edu	37	7	126698210	126698210	+	RNA	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:126698210G>A	hsa-mir-592|MI0003604	-			c.29G>A			GRM8_uc003vls.2_Intron|GRM8_uc003vlr.2_Intron|GRM8_uc011kof.1_Intron|GRM8_uc003vlt.2_Intron|GRM8_uc010lkz.1_Intron|GRM8_uc003vlu.1_Intron																	0						ACACATCATCGCATATTGACA	0.458													8	16					0	0	0.004482	0	0	
GRM8	2918	broad.mit.edu	37	7	126883250	126883250	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:126883250G>A	uc003vlr.2	-	1	320	c.9C>T	c.(7-9)TGC>TGT	p.C3C	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Silent_p.C3C|GRM8_uc010lkz.1_RNA	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	3					negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	GCTTTCCCTCGCATACCATTT	0.498										HNSCC(24;0.065)	OREG0003802	type=REGULATORY REGION|Gene=GRM8|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	10	63					0	0	0.008291	0	0	
GCC1	79571	broad.mit.edu	37	7	127222255	127222255	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:127222255C>T	uc003vma.2	-	2	2559	c.2141G>A	c.(2140-2142)AGC>AAC	p.S714N		NM_024523	NP_078799	Q96CN9	GCC1_HUMAN	Golgi coiled-coil protein 1	714	Potential.|GRIP.					Golgi membrane|plasma membrane	protein binding			ovary(2)	2						TCCCTCCCTGCTCTGGTCCCT	0.582													23	65					0	0	0.004656	0	0	
FSCN3	29999	broad.mit.edu	37	7	127240362	127240362	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:127240362C>T	uc003vmd.1	+	6	1625	c.1406C>T	c.(1405-1407)GCC>GTC	p.A469V	FSCN3_uc011koh.1_Silent_p.G333G|FSCN3_uc010llc.1_Silent_p.G467G	NM_020369	NP_065102	Q9NQT6	FSCN3_HUMAN	fascin 3	469						actin cytoskeleton|cytoplasm	actin filament binding|protein binding, bridging			ovary(1)	1						ACTGTACTGGCCCCCAATGGC	0.507													9	33					0	0	0.008291	0	0	
LRRC4	64101	broad.mit.edu	37	7	127669682	127669682	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:127669682G>A	uc003vmk.2	-	2	1149	c.1012C>T	c.(1012-1014)CGC>TGC	p.R338C	SND1_uc003vmi.2_Intron|SND1_uc010lle.2_Intron	NM_022143	NP_071426	Q9HBW1	LRRC4_HUMAN	leucine rich repeat containing 4 precursor	338	Extracellular (Potential).|LRRCT.					cell junction|integral to membrane|postsynaptic membrane				large_intestine(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4				Lung(243;0.124)		ACGAGGTAGCGGCCTCGCATG	0.577													8	24					0	0	0.008291	0	0	
LRRC4	64101	broad.mit.edu	37	7	127670230	127670230	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:127670230C>T	uc003vmk.2	-	2	601	c.464G>A	c.(463-465)CGC>CAC	p.R155H	SND1_uc003vmi.2_Intron|SND1_uc010lle.2_Intron	NM_022143	NP_071426	Q9HBW1	LRRC4_HUMAN	leucine rich repeat containing 4 precursor	155	LRR 4.|Extracellular (Potential).					cell junction|integral to membrane|postsynaptic membrane				large_intestine(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4				Lung(243;0.124)		GGGGTTGTTGCGAAGCCAGAG	0.587													9	66					0	0	0.008291	0	0	
RBM28	55131	broad.mit.edu	37	7	127964664	127964664	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:127964664C>T	uc003vmp.2	-	12	1402	c.1287G>A	c.(1285-1287)ACG>ACA	p.T429T	RBM28_uc003vmo.2_Silent_p.T46T|RBM28_uc011koj.1_Silent_p.T288T|RBM28_uc011kok.1_Silent_p.T376T	NM_018077	NP_060547	Q9NW13	RBM28_HUMAN	RNA binding motif protein 28	429					mRNA processing|RNA splicing	Golgi apparatus|nucleolus|spliceosomal complex	nucleotide binding|RNA binding			ovary(2)	2						TCTTCACCTTCGTCGTCTGAA	0.562													19	162					0	0	0.007413	0	0	
FLNC	2318	broad.mit.edu	37	7	128482937	128482937	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:128482937G>A	uc003vnz.3	+	16	2688	c.2479G>A	c.(2479-2481)GAC>AAC	p.D827N	FLNC_uc003voa.3_Missense_Mutation_p.D827N	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	827	Filamin 6.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						GAATGACAACGACACCTTCAC	0.587													4	31					0	0	0.009096	0	0	
FAM40B	57464	broad.mit.edu	37	7	129122851	129122851	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:129122851C>T	uc011koy.1	+	20	2258	c.2218C>T	c.(2218-2220)CGT>TGT	p.R740C	FAM40B_uc003vow.2_Missense_Mutation_p.R740C|FAM40B_uc011koz.1_Missense_Mutation_p.R232C	NM_020704	NP_065755	Q9ULQ0	FA40B_HUMAN	hypothetical protein LOC57464 isoform a	740											0						CCAGAAAGTGCGTCACCGCAT	0.448													7	52					0	0	0.003080	0	0	
CPA1	1357	broad.mit.edu	37	7	130027747	130027747	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:130027747G>A	uc003vpx.2	+	10	1227	c.1155G>A	c.(1153-1155)GGG>GGA	p.G385G		NM_001868	NP_001859	P15085	CBPA1_HUMAN	carboxypeptidase A1 precursor	385					proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(1)	1	Melanoma(18;0.0435)					GGGACACTGGGCGCTATGGCT	0.577													23	220					0	0	0.009535	0	0	
MEST	4232	broad.mit.edu	37	7	130138010	130138010	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:130138010G>A	uc003vqg.2	+	5	587	c.370G>A	c.(370-372)GCC>ACC	p.A124T	MEST_uc003vqc.2_Missense_Mutation_p.A115T|MEST_uc003vqd.2_Missense_Mutation_p.A115T|MEST_uc003vqf.2_Missense_Mutation_p.A115T|MEST_uc011kph.1_Missense_Mutation_p.A110T|MEST_uc010lmg.2_Missense_Mutation_p.A124T	NM_002402	NP_002393	Q5EB52	MEST_HUMAN	mesoderm specific transcript isoform a	124					mesoderm development	endoplasmic reticulum membrane|integral to membrane	hydrolase activity|protein binding			ovary(2)	2	Melanoma(18;0.0435)					ATTTGAGCAGGCCAGCATCGT	0.512													8	76					0	0	0.006214	0	0	
PLXNA4	91584	broad.mit.edu	37	7	131829950	131829950	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:131829950T>A	uc003vra.3	-	29	5382	c.5153A>T	c.(5152-5154)GAC>GTC	p.D1718V	PLXNA4_uc003vqz.3_Missense_Mutation_p.D3V	NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	1718	Cytoplasmic (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						ATCCAGGAAGTCAAACATGTA	0.557													12	57					0	0	0.003163	0	0	
PLXNA4	91584	broad.mit.edu	37	7	132174113	132174113	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:132174113C>T	uc003vra.3	-	3	1538	c.1309G>A	c.(1309-1311)GCA>ACA	p.A437T	PLXNA4_uc003vrc.2_Missense_Mutation_p.A437T|PLXNA4_uc003vrb.2_Missense_Mutation_p.A437T	NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	437	Extracellular (Potential).|Sema.					integral to membrane|intracellular|plasma membrane				ovary(1)	1						TAGACATATGCGATGACAGAC	0.527													4	54					0	0	0.001168	0	0	
PLXNA4	91584	broad.mit.edu	37	7	132192896	132192896	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:132192896G>A	uc003vra.3	-	2	786	c.557C>T	c.(556-558)GCC>GTC	p.A186V	PLXNA4_uc003vrc.2_Missense_Mutation_p.A186V|PLXNA4_uc003vrb.2_Missense_Mutation_p.A186V	NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	186	Extracellular (Potential).|Sema.					integral to membrane|intracellular|plasma membrane				ovary(1)	1						CACTGCCGTGGCAATGAACAG	0.522													23	74					0	0	0.002836	0	0	
CALD1	800	broad.mit.edu	37	7	134632408	134632408	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:134632408C>T	uc003vrz.2	+	8	2141	c.1682C>T	c.(1681-1683)GCG>GTG	p.A561V	CALD1_uc003vry.2_Missense_Mutation_p.A306V|CALD1_uc003vsa.2_Missense_Mutation_p.A332V|CALD1_uc003vsb.2_Missense_Mutation_p.A306V|CALD1_uc010lmm.2_Missense_Mutation_p.A332V|CALD1_uc011kpt.1_Missense_Mutation_p.A80V|CALD1_uc003vsc.2_Missense_Mutation_p.A326V|CALD1_uc003vsd.2_Missense_Mutation_p.A300V|CALD1_uc011kpu.1_Missense_Mutation_p.A311V|CALD1_uc011kpv.1_Missense_Mutation_p.A170V|CALD1_uc003vse.2_Missense_Mutation_p.A425V	NM_033138	NP_149129	Q05682	CALD1_HUMAN	caldesmon 1 isoform 1	561					cellular component movement|muscle contraction	cytosol|focal adhesion|myofibril	actin binding|calmodulin binding|myosin binding|tropomyosin binding				0						cagcaggaggcggctttggag	0.289													6	10					0	0	0.001984	0	0	
NUP205	23165	broad.mit.edu	37	7	135303205	135303205	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:135303205C>T	uc003vsw.2	+	28	3848	c.3817C>T	c.(3817-3819)CTG>TTG	p.L1273L	NUP205_uc003vsx.2_5'Flank	NM_015135	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa	1273					carbohydrate metabolic process|glucose transport|mRNA transport|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6						AAATAAATTGCTGCAGTGTCT	0.428													27	92					0	0	0.002096	0	0	
NUP205	23165	broad.mit.edu	37	7	135304191	135304191	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:135304191G>A	uc003vsw.2	+	29	4015	c.3984G>A	c.(3982-3984)GCG>GCA	p.A1328A	NUP205_uc003vsx.2_5'Flank	NM_015135	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa	1328					carbohydrate metabolic process|glucose transport|mRNA transport|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6						ATGAAGCTGCGCAAGAGTTAA	0.443													23	109					0	0	0.004656	0	0	
SLC13A4	26266	broad.mit.edu	37	7	135390380	135390380	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:135390380C>T	uc003vta.2	-	5	1246	c.557G>A	c.(556-558)AGC>AAC	p.S186N	SLC13A4_uc003vtb.2_Missense_Mutation_p.S186N	NM_012450	NP_036582	Q9UKG4	S13A4_HUMAN	solute carrier family 13 (sodium/sulfate	186						integral to plasma membrane	sodium:sulfate symporter activity				0						AGAAGGTTGGCTGTTCTTTAC	0.507													30	80					0	0	0.003271	0	0	
Unknown	0	broad.mit.edu	37	7	136848959	136848959	+	RNA	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:136848959G>A	uc003vtp.1	-	1		c.130C>T								Homo sapiens clone N1 NTera2D1 teratocarcinoma mRNA.																		TTTATGAGTCGCACCAACCGA	0.507													16	52					0	0	0.008871	0	0	
PTN	5764	broad.mit.edu	37	7	136936003	136936003	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:136936003C>T	uc003vtq.2	-	4	788	c.425G>A	c.(424-426)GGC>GAC	p.G142D	PTN_uc010lmx.2_Missense_Mutation_p.G142D|PTN_uc003vtr.1_Missense_Mutation_p.G142D	NM_002825	NP_002816	P21246	PTN_HUMAN	pleiotrophin	142					nervous system development|positive regulation of cell division|positive regulation of cell proliferation|transmembrane receptor protein tyrosine phosphatase signaling pathway	endoplasmic reticulum|extracellular space	growth factor activity|heparin binding|protein phosphatase inhibitor activity			upper_aerodigestive_tract(1)|pancreas(1)	2						GGTCAGTTTGCCACAGGGCTT	0.483													9	175					0	0	0.006214	0	0	
TMEM213	155006	broad.mit.edu	37	7	138487646	138487646	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:138487646C>T	uc010lna.2	+	3	267	c.156C>T	c.(154-156)AAC>AAT	p.N52N	TMEM213_uc010lnb.2_Silent_p.N51N	NM_001085429	NP_001078898	A2RRL7	TM213_HUMAN	transmembrane protein 213	52	Extracellular (Potential).					integral to membrane					0						CCCCACCAGACGTGGACTTCT	0.592													12	24					0	0	0.001368	0	0	
KIAA1549	57670	broad.mit.edu	37	7	138579249	138579249	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:138579249A>G	uc011kql.1	-	10	3920	c.3871T>C	c.(3871-3873)TCT>CCT	p.S1291P	KIAA1549_uc011kqi.1_Missense_Mutation_p.S75P|KIAA1549_uc003vuk.3_Missense_Mutation_p.S1241P|KIAA1549_uc011kqj.1_Missense_Mutation_p.S1291P|KIAA1549_uc011kqk.1_Missense_Mutation_p.S75P	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	1291						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						GATTCCGGAGACGGCCTCTTC	0.483			O	BRAF	pilocytic astrocytoma								4	83					0	0	0.000602	0	0	
KIAA1549	57670	broad.mit.edu	37	7	138593813	138593813	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:138593813C>T	uc011kql.1	-	5	3249	c.3200G>A	c.(3199-3201)CGC>CAC	p.R1067H	KIAA1549_uc003vuk.3_Missense_Mutation_p.R1017H|KIAA1549_uc011kqj.1_Missense_Mutation_p.R1067H	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	1067						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						TTTCTCAATGCGCTGGGTGAA	0.458			O	BRAF	pilocytic astrocytoma								4	34					0	0	0.009096	0	0	
KIAA1549	57670	broad.mit.edu	37	7	138604036	138604036	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:138604036C>T	uc011kql.1	-	2	385	c.336G>A	c.(334-336)CCG>CCA	p.P112P	KIAA1549_uc003vuk.3_Silent_p.P62P|KIAA1549_uc011kqj.1_Silent_p.P112P	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	112						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						TGGCAGACGGCGGGGCTGTGA	0.517			O	BRAF	pilocytic astrocytoma								24	50					0	0	0.003330	0	0	
UBN2	254048	broad.mit.edu	37	7	138978728	138978728	+	Splice_Site	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:138978728G>A	uc011kqr.1	+	17	3994	c.3994_splice	c.e17+1	p.D1332_splice		NM_173569	NP_775840	Q6ZU65	UBN2_HUMAN	ubinuclein 2											ovary(1)|skin(1)	2						GCATTTCACGGTGAGAACGCC	0.433													16	26					0	0	0.004990	0	0	
BRAF	673	broad.mit.edu	37	7	140434413	140434413	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:140434413G>A	uc003vwc.3	-	18	2346	c.2285C>T	c.(2284-2286)GCG>GTG	p.A762V		NM_004333	NP_004324	P15056	BRAF_HUMAN	B-Raf	762					activation of MAPKK activity|anti-apoptosis|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of peptidyl-serine phosphorylation|small GTPase mediated signal transduction|synaptic transmission	cytosol|nucleus|plasma membrane	ATP binding|metal ion binding		KIAA1549/BRAF(229)|AKAP9_ENST00000356239/BRAF(10)|AGTRAP/BRAF(2)|FCHSD1/BRAF(2)|SLC45A3/BRAF(2)	thyroid(8166)|large_intestine(5052)|skin(3798)|NS(368)|central_nervous_system(284)|ovary(236)|lung(78)|eye(53)|prostate(44)|endometrium(30)|biliary_tract(28)|soft_tissue(27)|haematopoietic_and_lymphoid_tissue(22)|breast(18)|upper_aerodigestive_tract(13)|stomach(13)|pancreas(10)|small_intestine(10)|testis(7)|bone(6)|cervix(5)|genital_tract(4)|oesophagus(3)|urinary_tract(3)|adrenal_gland(3)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|meninges(1)|kidney(1)|autonomic_ganglia(1)|pituitary(1)|salivary_gland(1)	18290	Melanoma(164;0.00956)				Sorafenib(DB00398)	GACAGGAAACGCACCATATCC	0.403		61	Mis|T|O	AKAP9|KIAA1549	melanoma|colorectal|papillary thyroid|borderline ov|Non small-cell lung cancer (NSCLC)|cholangiocarcinoma|pilocytic astrocytoma		Cardio-facio-cutaneous syndrome		Cardiofaciocutaneous_syndrome				7	336					0	0	0.003080	0	0	
TAS2R3	50831	broad.mit.edu	37	7	141464395	141464395	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:141464395C>A	uc003vwp.1	+	1	499	c.437C>A	c.(436-438)GCA>GAA	p.A146E		NM_016943	NP_058639	Q9NYW6	TA2R3_HUMAN	taste receptor T2R3	146	Helical; Name=4; (Potential).				sensory perception of taste		taste receptor activity			central_nervous_system(1)	1	Melanoma(164;0.0171)					GGTAGTACCGCATCTCTGATC	0.458													36	71					9.04072e-19	9.89344e-19	0.003271	1	0	
MGAM	8972	broad.mit.edu	37	7	141796213	141796213	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:141796213C>T	uc003vwy.2	+	42	5056	c.5002C>T	c.(5002-5004)CGT>TGT	p.R1668C		NM_004668	NP_004659	O43451	MGA_HUMAN	maltase-glucoamylase	1668	Glucoamylase.|Lumenal (Potential).				polysaccharide digestion|starch catabolic process	apical plasma membrane|integral to membrane	carbohydrate binding|glucan 1,4-alpha-glucosidase activity|maltose alpha-glucosidase activity			ovary(2)	2	Melanoma(164;0.0272)				Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)	TGTCCTGGAGCGTGTGAGTAT	0.473													10	40					0	0	0.006214	0	0	
MGAM	8972	broad.mit.edu	37	7	141797431	141797431	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:141797431C>T	uc003vwy.2	+	43	5097	c.5043C>T	c.(5041-5043)CGC>CGT	p.R1681R		NM_004668	NP_004659	O43451	MGA_HUMAN	maltase-glucoamylase	1681	Glucoamylase.|Lumenal (Potential).				polysaccharide digestion|starch catabolic process	apical plasma membrane|integral to membrane	carbohydrate binding|glucan 1,4-alpha-glucosidase activity|maltose alpha-glucosidase activity			ovary(2)	2	Melanoma(164;0.0272)				Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)	CTAGAGCCCGCTGGTATGATT	0.279													6	33					0	0	0.001984	0	0	
TRPV5	56302	broad.mit.edu	37	7	142609695	142609695	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:142609695T>G	uc003wby.1	-	13	2005	c.1741A>C	c.(1741-1743)ACC>CCC	p.T581P		NM_019841	NP_062815	Q9NQA5	TRPV5_HUMAN	transient receptor potential cation channel,	581	Cytoplasmic (Potential).				protein tetramerization	apical plasma membrane|integral to plasma membrane	calcium channel activity			ovary(3)|central_nervous_system(2)|skin(1)	6	Melanoma(164;0.059)					CTCCAGTGGGTGTCGCCCATC	0.532													7	64					0	0	0.003080	0	0	
ZYX	7791	broad.mit.edu	37	7	143087068	143087068	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:143087068G>A	uc003wcw.2	+	9	1767	c.1612G>A	c.(1612-1614)GAG>AAG	p.E538K	ZYX_uc011ktd.1_Missense_Mutation_p.E381K|ZYX_uc003wcx.2_Missense_Mutation_p.E538K|ZYX_uc011kte.1_Missense_Mutation_p.E507K|ZYX_uc011ktf.1_Missense_Mutation_p.E381K	NM_001010972	NP_001010972	Q15942	ZYX_HUMAN	zyxin	538	LIM zinc-binding 3.				cell adhesion|cell-cell signaling|interspecies interaction between organisms|signal transduction	cell-cell adherens junction|cytoplasm|focal adhesion|integral to plasma membrane|nucleus|stress fiber	protein binding|zinc ion binding				0	Melanoma(164;0.205)					TTACAAGTGTGAGGTCAGCCA	0.572													20	50					0	0	0.010504	0	0	
FAM115A	9747	broad.mit.edu	37	7	143573264	143573264	+	Silent	SNP	G	A	A	rs150457102	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:143573264G>A	uc003wdo.1	-	2	571	c.438C>T	c.(436-438)GGC>GGT	p.G146G	FAM115A_uc011ktu.1_Intron|FAM115A_uc003wdp.1_Silent_p.G146G	NM_014719	NP_055534	Q9Y4C2	F115A_HUMAN	hypothetical protein LOC9747	146											0	Melanoma(164;0.0903)					TGAGCAAGCCGCCACCACATT	0.522													6	62					0	0	0.001168	0	0	
OR2F2	135948	broad.mit.edu	37	7	143632824	143632824	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:143632824C>A	uc011ktv.1	+	1	499	c.499C>A	c.(499-501)CCC>ACC	p.P167T		NM_001004685	NP_001004685	O95006	OR2F2_HUMAN	olfactory receptor, family 2, subfamily F,	167	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	Melanoma(164;0.0903)					CTTTCAGCTGCCCATGTGCAC	0.522													23	45					2.48779e-11	2.68585e-11	0.005443	1	0	
OR2F1	26211	broad.mit.edu	37	7	143657808	143657808	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:143657808G>A	uc003wds.1	+	1	789	c.745G>A	c.(745-747)GCC>ACC	p.A249T		NM_012369	NP_036501	Q13607	OR2F1_HUMAN	olfactory receptor, family 2, subfamily F,	249	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	Melanoma(164;0.0903)					CACAGTGGTTGCCCTGTGCTA	0.478													20	69					0	0	0.005443	0	0	
CNTNAP2	26047	broad.mit.edu	37	7	147336252	147336252	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:147336252T>C	uc003weu.1	+	13	2468	c.1952T>C	c.(1951-1953)GTC>GCC	p.V651A		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	651	Extracellular (Potential).|Fibrinogen C-terminal.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			ACGCCTGTGGTCGGCTACAAC	0.507										HNSCC(39;0.1)			20	84					0	0	0.001882	0	0	
CUL1	8454	broad.mit.edu	37	7	148456729	148456729	+	Silent	SNP	C	T	T	rs144866150	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:148456729C>T	uc010lpg.2	+	6	1150	c.624C>T	c.(622-624)TAC>TAT	p.Y208Y	CUL1_uc003wey.2_Silent_p.Y208Y|CUL1_uc003wez.2_Silent_p.Y98Y	NM_003592	NP_003583	Q13616	CUL1_HUMAN	cullin 1	208					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein ubiquitination|S phase of mitotic cell cycle|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytosol|nucleoplasm|SCF ubiquitin ligase complex	ubiquitin protein ligase binding			lung(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)			TACAGTCTTACGGTAAATAAT	0.289													15	36					0	0	0.003163	0	0	
CUL1	8454	broad.mit.edu	37	7	148485686	148485686	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:148485686G>A	uc010lpg.2	+	14	2043	c.1517G>A	c.(1516-1518)CGC>CAC	p.R506H	CUL1_uc003wey.2_Missense_Mutation_p.R506H|CUL1_uc003wez.2_Missense_Mutation_p.R396H|CUL1_uc003wfa.2_Missense_Mutation_p.R167H	NM_003592	NP_003583	Q13616	CUL1_HUMAN	cullin 1	506					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein ubiquitination|S phase of mitotic cell cycle|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytosol|nucleoplasm|SCF ubiquitin ligase complex	ubiquitin protein ligase binding			lung(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)			AAACTTCAGCGCATGTTTCAA	0.418													5	107					0	0	0.000602	0	0	
CUL1	8454	broad.mit.edu	37	7	148496426	148496426	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:148496426C>T	uc010lpg.2	+	21	2722	c.2196C>T	c.(2194-2196)GGC>GGT	p.G732G	CUL1_uc003wey.2_Silent_p.G732G|CUL1_uc003wez.2_Silent_p.G622G|CUL1_uc003wfa.2_Silent_p.G393G	NM_003592	NP_003583	Q13616	CUL1_HUMAN	cullin 1	732					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein ubiquitination|S phase of mitotic cell cycle|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytosol|nucleoplasm|SCF ubiquitin ligase complex	ubiquitin protein ligase binding			lung(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)			AGTTACTTGGCGAGGTCCTCA	0.453													5	60					0	0	0.000602	0	0	
EZH2	2146	broad.mit.edu	37	7	148544339	148544339	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:148544339G>A	uc003wfd.1	-	2	218	c.52C>T	c.(52-54)CGT>TGT	p.R18C	EZH2_uc011kug.1_Missense_Mutation_p.R18C|EZH2_uc003wfb.1_Missense_Mutation_p.R18C|EZH2_uc003wfc.1_Missense_Mutation_p.R18C|EZH2_uc011kuh.1_Missense_Mutation_p.R18C|EZH2_uc011kui.1_Missense_Mutation_p.R18C|EZH2_uc011kuj.1_RNA	NM_004456	NP_004447	Q15910	EZH2_HUMAN	enhancer of zeste 2 isoform a	18	Interaction with DNMT1, DNMT3A and DNMT3B.				negative regulation of retinoic acid receptor signaling pathway|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex	DNA binding|histone-lysine N-methyltransferase activity|protein binding			haematopoietic_and_lymphoid_tissue(180)|skin(2)|large_intestine(1)	183	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00239)			GATTTTACACGCTTCCGCCAA	0.378			Mis		DLBCL								20	203					0	0	0.002780	0	0	
ZNF767	79970	broad.mit.edu	37	7	149317123	149317123	+	RNA	SNP	C	T	T	rs148282289		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:149317123C>T	uc003wfy.3	-	4		c.682G>A			ZNF767_uc003wfx.2_RNA|ZNF767_uc011kuq.1_RNA	NR_027789				Homo sapiens cDNA FLJ12700 fis, clone NT2RP1000721.											central_nervous_system(1)	1	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00434)			TTGGAGATGGCGTAGTCTGAG	0.522													4	22					0	0	0.009096	0	0	
C7orf29	113763	broad.mit.edu	37	7	150027622	150027622	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:150027622C>T	uc003wgy.2	+	1	685	c.129C>T	c.(127-129)GGC>GGT	p.G43G	LRRC61_uc003wgv.2_Intron|LRRC61_uc003wgx.2_Intron|LRRC61_uc003wgw.2_Intron	NM_138434	NP_612443	Q96FA7	CG029_HUMAN	hypothetical protein LOC113763	43										ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(82;0.011)			GGGAGAGGGGCGCAGCCATCC	0.627													8	33					0	0	0.008291	0	0	
REPIN1	29803	broad.mit.edu	37	7	150069158	150069158	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:150069158G>T	uc010lpq.1	+	4	1317	c.828G>T	c.(826-828)AAG>AAT	p.K276N	REPIN1_uc003whd.2_Missense_Mutation_p.K265N|REPIN1_uc010lpr.1_Missense_Mutation_p.K333N|REPIN1_uc003whc.2_Missense_Mutation_p.K276N|REPIN1_uc003whe.2_Missense_Mutation_p.K276N	NM_013400	NP_037532	Q9BWE0	REPI1_HUMAN	replication initiator 1 isoform 1	276	C2H2-type 7.				DNA replication	nuclear origin of replication recognition complex	DNA binding|zinc ion binding			pancreas(1)	1	Ovarian(565;0.183)|Melanoma(164;0.226)		OV - Ovarian serous cystadenocarcinoma(82;0.011)			TTACCAATAAGCCCTATCTGA	0.657													7	16					3.86212e-05	4.06125e-05	0.008291	1	0	
AGAP3	116988	broad.mit.edu	37	7	150815376	150815376	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:150815376C>T	uc003wjg.1	+	6	789	c.786C>T	c.(784-786)ACC>ACT	p.T262T	AGAP3_uc003wje.1_Silent_p.T34T|AGAP3_uc003wjf.1_Silent_p.T262T|AGAP3_uc010lpy.1_Silent_p.T262T|AGAP3_uc003wjh.1_Silent_p.T442T	NM_031946	NP_114152	Q96P47	AGAP3_HUMAN	centaurin, gamma 3 isoform a	226	Small GTPase-like.				regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm|membrane	ARF GTPase activator activity|GTP binding|GTPase activity|zinc ion binding			central_nervous_system(2)|ovary(1)	3						AGCGGTGCACCTACTATGAGA	0.642													5	55					0	0	0.001984	0	0	
ABCF2	10061	broad.mit.edu	37	7	150912693	150912693	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:150912693T>A	uc003wjp.2	-	13	1638	c.1527A>T	c.(1525-1527)CAA>CAT	p.Q509H	ABCF2_uc003wjo.1_Missense_Mutation_p.Q509H	NM_007189	NP_009120	Q9UG63	ABCF2_HUMAN	ATP-binding cassette, sub-family F, member 2	509	ABC transporter 2.					ATP-binding cassette (ABC) transporter complex|mitochondrial envelope	ATP binding|ATPase activity|transporter activity			central_nervous_system(1)	1			OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TACTGACCTGTTGTTTCCCAG	0.522													68	194					0	0	0.003610	0	0	
CHPF2	54480	broad.mit.edu	37	7	150932242	150932242	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:150932242G>A	uc003wjr.1	+	2	1885	c.372G>A	c.(370-372)GTG>GTA	p.V124V	CHPF2_uc003wjq.1_Silent_p.V116V	NM_019015	NP_061888	Q9P2E5	CHPF2_HUMAN	chondroitin polymerizing factor 2	124	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity			ovary(1)	1						ACCGTACGGTGGCCCATCACT	0.647													6	25					0	0	0.004482	0	0	
MLL3	58508	broad.mit.edu	37	7	151836322	151836322	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:151836322C>T	uc003wla.2	-	57	14702	c.14483G>A	c.(14482-14484)CGC>CAC	p.R4828H	MLL3_uc003wkz.2_Missense_Mutation_p.R3942H|MLL3_uc003wkx.2_Missense_Mutation_p.R986H|MLL3_uc003wky.2_Missense_Mutation_p.R2388H	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	4828	SET.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		GTTATCCATGCGGAACATGTA	0.552			N		medulloblastoma								5	53					0	0	0.001984	0	0	
MLL3	58508	broad.mit.edu	37	7	151845551	151845551	+	Silent	SNP	G	A	A	rs138230031		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:151845551G>A	uc003wla.2	-	52	13680	c.13461C>T	c.(13459-13461)TGC>TGT	p.C4487C	MLL3_uc003wkz.2_Silent_p.C3605C|MLL3_uc003wkx.2_Silent_p.C645C|MLL3_uc003wky.2_Silent_p.C2051C	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	4487					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		CTTTAATGGCGCAAGTGAAGT	0.423			N		medulloblastoma								12	118					0	0	0.001368	0	0	
MLL3	58508	broad.mit.edu	37	7	151873336	151873336	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:151873336G>A	uc003wla.2	-	38	9421	c.9202C>T	c.(9202-9204)CAG>TAG	p.Q3068*	MLL3_uc003wkz.2_Nonsense_Mutation_p.Q2129*|MLL3_uc003wky.2_Nonsense_Mutation_p.Q577*	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	3068	Potential.|Gln-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		TGTCTTTGCTGCTGCTGTTCT	0.433			N		medulloblastoma								7	129					0	0	0.004482	0	0	
MLL3	58508	broad.mit.edu	37	7	151878430	151878430	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:151878430T>C	uc003wla.2	-	36	6734	c.6515A>G	c.(6514-6516)GAC>GGC	p.D2172G	MLL3_uc003wkz.2_Missense_Mutation_p.D1233G	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	2172	Pro-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		ACTATATGGGTCAACAGTAGT	0.463			N		medulloblastoma								13	78					0	0	0.004007	0	0	
MLL3	58508	broad.mit.edu	37	7	151878749	151878749	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:151878749G>A	uc003wla.2	-	36	6415	c.6196C>T	c.(6196-6198)CGA>TGA	p.R2066*	MLL3_uc003wkz.2_Nonsense_Mutation_p.R1127*	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	2066	Pro-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		ACAGACAATCGCCTTGATGCC	0.453			N		medulloblastoma								18	36					0	0	0.008871	0	0	
MLL3	58508	broad.mit.edu	37	7	151962157	151962157	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:151962157G>A	uc003wla.2	-	8	1369	c.1150C>T	c.(1150-1152)CAA>TAA	p.Q384*		NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	384	PHD-type 1.|RING-type.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		TCAGGACATTGCCAACCTGCA	0.428			N		medulloblastoma								13	488					0	0	0.003163	0	0	
DPP6	1804	broad.mit.edu	37	7	154561150	154561150	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:154561150G>A	uc003wlk.2	+	9	1036	c.907G>A	c.(907-909)GCA>ACA	p.A303T	DPP6_uc003wli.2_Missense_Mutation_p.A239T|DPP6_uc003wlm.2_Missense_Mutation_p.A241T|DPP6_uc011kvq.1_Missense_Mutation_p.A196T	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	303	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			GACACACATCGCACACTGGTG	0.507													13	38					0	0	0.001855	0	0	
PTPRN2	5799	broad.mit.edu	37	7	157369425	157369425	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:157369425C>T	uc003wno.2	-	19	2784	c.2663G>A	c.(2662-2664)AGG>AAG	p.R888K	PTPRN2_uc003wnp.2_Missense_Mutation_p.R871K|PTPRN2_uc003wnq.2_Missense_Mutation_p.R859K|PTPRN2_uc003wnr.2_Missense_Mutation_p.R850K|PTPRN2_uc011kwa.1_Missense_Mutation_p.R911K|uc011kwb.1_5'Flank|MIR153-2_hsa-mir-153-2|MI0000464_5'Flank	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N	888	Cytoplasmic (Potential).|Tyrosine-protein phosphatase.					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		ATAGAAGCTCCTCACCAGGAA	0.582													4	11					0	0	0.009096	0	0	
MIR595	693180	broad.mit.edu	37	7	158325474	158325474	+	RNA	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:158325474C>T	hsa-mir-595|MI0003607	-			c.32C>T			PTPRN2_uc003wno.2_Intron|PTPRN2_uc003wnp.2_Intron|PTPRN2_uc003wnq.2_Intron|PTPRN2_uc003wnr.2_Intron|PTPRN2_uc011kwa.1_Intron																	0						CTACATTGAGCGTGCTGGTGT	0.517													16	101					0	0	0.006122	0	0	
FBXO25	26260	broad.mit.edu	37	8	401417	401417	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:401417C>T	uc003wox.2	+	7	890	c.624C>T	c.(622-624)GCC>GCT	p.A208A	FBXO25_uc003woy.2_Silent_p.A208A|FBXO25_uc003woz.2_Silent_p.A141A|FBXO25_uc003wpa.2_5'UTR	NM_183421	NP_904357	Q8TCJ0	FBX25_HUMAN	F-box only protein 25 isoform 1	208						nucleus|SCF ubiquitin ligase complex	actin binding|ubiquitin-protein ligase activity			lung(1)	1		Ovarian(12;0.00965)|Colorectal(14;0.0815)|Myeloproliferative disorder(644;0.116)|all_neural(12;0.122)		Epithelial(5;3.14e-14)|OV - Ovarian serous cystadenocarcinoma(5;1.56e-07)|BRCA - Breast invasive adenocarcinoma(11;1.88e-06)		CTATTCTCGCCTGGCAACAAC	0.368													5	73					0	0	0.001168	0	0	
DLGAP2	9228	broad.mit.edu	37	8	1497706	1497706	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:1497706G>A	uc003wpl.2	+	2	944	c.847G>A	c.(847-849)GCC>ACC	p.A283T	DLGAP2_uc003wpm.2_Missense_Mutation_p.A283T	NM_004745	NP_004736	Q9P1A6	DLGP2_HUMAN	discs large-associated protein 2	362					neuron-neuron synaptic transmission	cell junction|neurofilament|postsynaptic density|postsynaptic membrane	protein binding				0		Ovarian(12;0.0271)|Hepatocellular(245;0.0838)|Colorectal(14;0.0846)		BRCA - Breast invasive adenocarcinoma(11;0.000169)|READ - Rectum adenocarcinoma(644;0.171)		GACGCCCGACGCCAAGTACCT	0.647													4	22					0	0	0.009096	0	0	
DLGAP2	9228	broad.mit.edu	37	8	1649446	1649446	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:1649446A>G	uc003wpl.2	+	12	2899	c.2802A>G	c.(2800-2802)AGA>AGG	p.R934R	DLGAP2_uc003wpm.2_Silent_p.R920R	NM_004745	NP_004736	Q9P1A6	DLGP2_HUMAN	discs large-associated protein 2	1013					neuron-neuron synaptic transmission	cell junction|neurofilament|postsynaptic density|postsynaptic membrane	protein binding				0		Ovarian(12;0.0271)|Hepatocellular(245;0.0838)|Colorectal(14;0.0846)		BRCA - Breast invasive adenocarcinoma(11;0.000169)|READ - Rectum adenocarcinoma(644;0.171)		TGCCCGACAGACAACGCCAGG	0.592													3	12					0	0	0.000602	0	0	
ARHGEF10	9639	broad.mit.edu	37	8	1814720	1814720	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:1814720G>A	uc003wpr.2	+	6	752	c.574G>A	c.(574-576)GCA>ACA	p.A192T	ARHGEF10_uc003wpq.1_Missense_Mutation_p.A217T|ARHGEF10_uc003wps.2_Missense_Mutation_p.A193T|ARHGEF10_uc003wpt.2_Missense_Mutation_p.A107T|ARHGEF10_uc010lrd.1_Missense_Mutation_p.A107T|ARHGEF10_uc003wpu.2_Missense_Mutation_p.A106T	NM_014629	NP_055444	O15013	ARHGA_HUMAN	Rho guanine nucleotide exchange factor 10	217					centrosome duplication|myelination in peripheral nervous system|positive regulation of GTP catabolic process|positive regulation of stress fiber assembly|regulation of Rho protein signal transduction|spindle assembly involved in mitosis	centrosome|cytosol|soluble fraction	kinesin binding|Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1		Colorectal(14;3.46e-05)|Renal(68;0.000518)|Ovarian(12;0.00409)|Myeloproliferative disorder(644;0.0255)|Hepatocellular(245;0.0834)		COAD - Colon adenocarcinoma(149;1.62e-05)|BRCA - Breast invasive adenocarcinoma(11;1.68e-05)|KIRC - Kidney renal clear cell carcinoma(542;0.00361)|READ - Rectum adenocarcinoma(644;0.0718)		AGAGGACAGCGCACTTGCCCG	0.562													4	42					0	0	0.000602	0	0	
ARHGEF10	9639	broad.mit.edu	37	8	1817418	1817418	+	Splice_Site	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:1817418T>C	uc003wpr.2	+	7	857	c.679_splice	c.e7+2	p.D227_splice	ARHGEF10_uc003wpq.1_Splice_Site_p.D252_splice|ARHGEF10_uc003wps.2_Splice_Site_p.D228_splice|ARHGEF10_uc003wpt.2_Splice_Site_p.D142_splice|ARHGEF10_uc010lrd.1_Silent_p.G142G|ARHGEF10_uc003wpu.2_Silent_p.G141G	NM_014629	NP_055444	O15013	ARHGA_HUMAN	Rho guanine nucleotide exchange factor 10						centrosome duplication|myelination in peripheral nervous system|positive regulation of GTP catabolic process|positive regulation of stress fiber assembly|regulation of Rho protein signal transduction|spindle assembly involved in mitosis	centrosome|cytosol|soluble fraction	kinesin binding|Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1		Colorectal(14;3.46e-05)|Renal(68;0.000518)|Ovarian(12;0.00409)|Myeloproliferative disorder(644;0.0255)|Hepatocellular(245;0.0834)		COAD - Colon adenocarcinoma(149;1.62e-05)|BRCA - Breast invasive adenocarcinoma(11;1.68e-05)|KIRC - Kidney renal clear cell carcinoma(542;0.00361)|READ - Rectum adenocarcinoma(644;0.0718)		CTGAACCAGGTTTGATTTTGT	0.443													10	62					0	0	0.000978	0	0	
CSMD1	64478	broad.mit.edu	37	8	3205517	3205517	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:3205517T>C	uc011kwk.1	-	22	3864	c.3474A>G	c.(3472-3474)CTA>CTG	p.L1158L	CSMD1_uc011kwj.1_Silent_p.L550L|CSMD1_uc003wqe.2_Silent_p.L314L	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1158	Extracellular (Potential).|CUB 7.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		TTTTTACCTTTAGAGTATCTC	0.303													3	17					0	0	0.009096	0	0	
ANGPT2	285	broad.mit.edu	37	8	6360702	6360702	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:6360702C>T	uc003wqj.3	-	9	1740	c.1411G>A	c.(1411-1413)GGC>AGC	p.G471S	MCPH1_uc003wqi.2_Intron|ANGPT2_uc003wqk.3_Missense_Mutation_p.G470S|ANGPT2_uc010lri.2_Missense_Mutation_p.G419S	NM_001147	NP_001138	O15123	ANGP2_HUMAN	angiopoietin 2 isoform a precursor	471	Fibrinogen C-terminal.				angiogenesis|blood coagulation|leukocyte migration|negative regulation of blood vessel endothelial cell migration|negative regulation of positive chemotaxis|Tie receptor signaling pathway	extracellular space	metal ion binding|receptor tyrosine kinase binding			upper_aerodigestive_tract(1)	1		Hepatocellular(245;0.0663)		Colorectal(4;0.0142)|READ - Rectum adenocarcinoma(4;0.19)|COAD - Colon adenocarcinoma(4;0.226)		CATTTAATGCCGTTGAACTTA	0.463													6	101					0	0	0.001984	0	0	
ANGPT2	285	broad.mit.edu	37	8	6371295	6371295	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:6371295C>T	uc003wqj.3	-	7	1432	c.1103G>A	c.(1102-1104)CGC>CAC	p.R368H	MCPH1_uc003wqi.2_Intron|ANGPT2_uc003wqk.3_Missense_Mutation_p.R367H|ANGPT2_uc010lri.2_Missense_Mutation_p.R316H|ANGPT2_uc003wql.3_Missense_Mutation_p.R367H	NM_001147	NP_001138	O15123	ANGP2_HUMAN	angiopoietin 2 isoform a precursor	368	Fibrinogen C-terminal.				angiogenesis|blood coagulation|leukocyte migration|negative regulation of blood vessel endothelial cell migration|negative regulation of positive chemotaxis|Tie receptor signaling pathway	extracellular space	metal ion binding|receptor tyrosine kinase binding			upper_aerodigestive_tract(1)	1		Hepatocellular(245;0.0663)		Colorectal(4;0.0142)|READ - Rectum adenocarcinoma(4;0.19)|COAD - Colon adenocarcinoma(4;0.226)		AAGCACATAGCGTTGCTGATT	0.363													6	84					0	0	0.003080	0	0	
ANGPT2	285	broad.mit.edu	37	8	6420295	6420295	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:6420295C>T	uc003wqj.3	-	1	490	c.161G>A	c.(160-162)CGC>CAC	p.R54H	MCPH1_uc003wqi.2_Intron|ANGPT2_uc003wqk.3_Missense_Mutation_p.R54H|ANGPT2_uc010lri.2_Missense_Mutation_p.R54H|ANGPT2_uc003wql.3_Missense_Mutation_p.R54H	NM_001147	NP_001138	O15123	ANGP2_HUMAN	angiopoietin 2 isoform a precursor	54					angiogenesis|blood coagulation|leukocyte migration|negative regulation of blood vessel endothelial cell migration|negative regulation of positive chemotaxis|Tie receptor signaling pathway	extracellular space	metal ion binding|receptor tyrosine kinase binding			upper_aerodigestive_tract(1)	1		Hepatocellular(245;0.0663)		Colorectal(4;0.0142)|READ - Rectum adenocarcinoma(4;0.19)|COAD - Colon adenocarcinoma(4;0.226)		GGAGGAAGAGCGGCAGTTGTC	0.552													4	36					0	0	0.001168	0	0	
FLJ10661	286042	broad.mit.edu	37	8	8094771	8094771	+	RNA	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:8094771C>T	uc011kwt.1	+	7		c.1000C>T			FLJ10661_uc010lrq.2_RNA|FLJ10661_uc003wsf.3_RNA	NR_024362				Homo sapiens cDNA FLJ60033 complete cds, highly similar to Protein FAM86A.												0						AATTGAGAGACGTGCCAGCTG	0.627													8	34					0	0	0.008291	0	0	
ERI1	90459	broad.mit.edu	37	8	8869247	8869247	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:8869247G>A	uc011kwu.1	+	3	743	c.483G>A	c.(481-483)ACG>ACA	p.T161T	ERI1_uc003wsk.2_Silent_p.T161T	NM_153332	NP_699163	Q8IV48	ERI1_HUMAN	three prime histone mRNA exonuclease 1	161	Exonuclease.				gene silencing by RNA|rRNA 3'-end processing	cytoplasm|histone pre-mRNA 3'end processing complex|nucleolus	3'-5' exonuclease activity|histone pre-mRNA stem-loop binding|metal ion binding|ribosome binding|rRNA binding				0					Adenosine monophosphate(DB00131)	TACTGAATACGCATACTTTAG	0.328													7	34					0	0	0.001984	0	0	
TNKS	8658	broad.mit.edu	37	8	9567472	9567472	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:9567472C>T	uc003wss.2	+	10	1591	c.1586C>T	c.(1585-1587)GCT>GTT	p.A529V	TNKS_uc011kwv.1_Missense_Mutation_p.A529V|TNKS_uc011kww.1_Missense_Mutation_p.A292V	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	529	ANK 7.				mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)		TAGCACTGTGCTGTGGCCTCT	0.333													16	36					0	0	0.004990	0	0	
TNKS	8658	broad.mit.edu	37	8	9605598	9605598	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:9605598C>T	uc003wss.2	+	18	2713	c.2708C>T	c.(2707-2709)GCG>GTG	p.A903V	TNKS_uc011kww.1_Missense_Mutation_p.A666V|TNKS_uc010lrt.1_RNA	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	903	ANK 15.				mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)		GATAAGTGGGCGTTTACTCCC	0.468													12	98					0	0	0.002450	0	0	
TNKS	8658	broad.mit.edu	37	8	9605648	9605648	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:9605648G>A	uc003wss.2	+	18	2763	c.2758G>A	c.(2758-2760)GCC>ACC	p.A920T	TNKS_uc011kww.1_Missense_Mutation_p.A683T|TNKS_uc010lrt.1_RNA	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	920	ANK 15.				mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding	p.A920T(1)		lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)		GCAGCTGTGCGCCCTCCTCCT	0.507													11	51					0	0	0.008291	0	0	
RP1L1	94137	broad.mit.edu	37	8	10464545	10464545	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:10464545C>T	uc003wtc.2	-	4	7292	c.7063G>A	c.(7063-7065)GCC>ACC	p.A2355T		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	2355					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		CCCAAAGGGGCCTCTTCTTGC	0.587													26	83					0	0	0.004656	0	0	
RP1L1	94137	broad.mit.edu	37	8	10480258	10480258	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:10480258G>A	uc003wtc.2	-	2	683	c.454C>T	c.(454-456)CGG>TGG	p.R152W		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	152					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		AGTATCCTCCGGGGGGTTTTA	0.582													16	88					0	0	0.006122	0	0	
RP1L1	94137	broad.mit.edu	37	8	10480525	10480525	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:10480525C>T	uc003wtc.2	-	2	416	c.187G>A	c.(187-189)GCC>ACC	p.A63T		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	63					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		TCCATGAGGGCGCTGAAGGTC	0.652													4	22					0	0	0.009096	0	0	
XKR6	286046	broad.mit.edu	37	8	10755900	10755900	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:10755900G>A	uc003wtk.1	-	3	1515	c.1488C>T	c.(1486-1488)GGC>GGT	p.G496G		NM_173683	NP_775954	Q5GH73	XKR6_HUMAN	XK, Kell blood group complex subunit-related	496						integral to membrane				ovary(1)|skin(1)	2				Lung(29;0.0407)|COAD - Colon adenocarcinoma(149;0.0555)		GATGCAGCACGCCATAGTATA	0.562													8	29					0	0	0.004482	0	0	
MTMR9	66036	broad.mit.edu	37	8	11180276	11180276	+	Silent	SNP	C	T	T	rs148685240		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:11180276C>T	uc003wtm.2	+	10	2027	c.1629C>T	c.(1627-1629)GAC>GAT	p.D543D	MTMR9_uc010lrx.2_Silent_p.D436D|MTMR9_uc011kxa.1_Silent_p.D458D|uc003wtn.1_5'Flank|uc003wto.1_Intron	NM_015458	NP_056273	Q96QG7	MTMR9_HUMAN	myotubularin related protein 9	543						cytoplasm	phosphatase activity|protein binding				0			STAD - Stomach adenocarcinoma(15;0.215)	COAD - Colon adenocarcinoma(149;0.0678)		AAACAGAGGACGGGATGCAGG	0.463													11	57					0	0	0.001855	0	0	
AMAC1L2	83650	broad.mit.edu	37	8	11188883	11188883	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:11188883C>T	uc003wtp.1	+	1	389	c.268C>T	c.(268-270)CGT>TGT	p.R90C		NM_054028	NP_473369	Q96KT7	AMCL2_HUMAN	acyl-malonyl condensing enzyme	90	DUF6 1.					integral to membrane					0			STAD - Stomach adenocarcinoma(15;0.00676)	COAD - Colon adenocarcinoma(149;0.0563)		ACTTAAACTGCGTGGCGACCC	0.582													35	144					0	0	0.006230	0	0	
FAM167A	83648	broad.mit.edu	37	8	11301681	11301681	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:11301681C>T	uc010lry.1	-	2	860	c.240G>A	c.(238-240)GAG>GAA	p.E80E	FAM167A_uc003wtw.2_Silent_p.E80E	NM_053279	NP_444509	Q96KS9	F167A_HUMAN	hypothetical protein LOC83648	80											0						GGAGCAAGGGCTCCTGCCCCC	0.687													4	9					0	0	0.000602	0	0	
GATA4	2626	broad.mit.edu	37	8	11615827	11615827	+	Missense_Mutation	SNP	G	A	A	rs147093296		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:11615827G>A	uc003wuc.2	+	7	1726	c.1172G>A	c.(1171-1173)GGC>GAC	p.G391D	GATA4_uc003wub.1_Missense_Mutation_p.G185D|GATA4_uc011kxc.1_Missense_Mutation_p.G392D|uc003wud.1_5'Flank	NM_002052	NP_002043	P43694	GATA4_HUMAN	GATA binding protein 4	391					atrial septum primum morphogenesis|atrial septum secundum morphogenesis|blood coagulation|cardiac right ventricle morphogenesis|cell-cell signaling|embryonic foregut morphogenesis|embryonic heart tube anterior/posterior pattern formation|endocardial cushion development|endoderm development|heart looping|intestinal epithelial cell differentiation|male gonad development|positive regulation of angiogenesis|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation vascular endothelial growth factor production|response to drug|transcription from RNA polymerase II promoter|ventricular septum development	nucleoplasm	activating transcription factor binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(15;0.0839)		STAD - Stomach adenocarcinoma(15;0.00225)	COAD - Colon adenocarcinoma(149;0.199)		GCGATGTCTGGCCATGGGCCC	0.612													23	76					0	0	0.007291	0	0	
USP17L2	377630	broad.mit.edu	37	8	11996191	11996191	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:11996191C>T	uc003wvc.1	-	1	79	c.79G>A	c.(79-81)GCA>ACA	p.A27T	FAM66D_uc011kxp.1_Intron|FAM66D_uc011kxo.1_Intron	NM_201402	NP_958804	Q6R6M4	U17L2_HUMAN	deubiquitinating enzyme 3	27					apoptosis|cell cycle|G2/M transition checkpoint|mitotic cell cycle G1/S transition checkpoint|protein deubiquitination|ubiquitin-dependent protein catabolic process	nucleus	ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)	3						GCAAAAGCTGCATCTGGCCGA	0.527													9	84					0	0	0.001368	0	0	
TUSC3	7991	broad.mit.edu	37	8	15508247	15508247	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:15508247G>A	uc003wwt.2	+	3	560	c.350G>A	c.(349-351)CGC>CAC	p.R117H	TUSC3_uc003wwr.2_Missense_Mutation_p.R117H|TUSC3_uc003wws.2_Missense_Mutation_p.R117H|TUSC3_uc003wwu.2_Missense_Mutation_p.R117H|TUSC3_uc003wwv.2_Missense_Mutation_p.R117H|TUSC3_uc003www.2_Missense_Mutation_p.R117H|TUSC3_uc003wwx.2_RNA|TUSC3_uc003wwy.2_Missense_Mutation_p.R117H	NM_006765	NP_006756	Q13454	TUSC3_HUMAN	tumor suppressor candidate 3 isoform a	117					cell redox homeostasis|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex				ovary(2)|central_nervous_system(1)	3				Colorectal(111;0.113)		AACTCCTGGCGCTATTCATCT	0.398													13	177					0	0	0.004990	0	0	
EFHA2	286097	broad.mit.edu	37	8	16956025	16956025	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:16956025G>A	uc003wxd.2	+	9	989	c.947G>A	c.(946-948)CGT>CAT	p.R316H		NM_181723	NP_859074	Q86XE3	EFHA2_HUMAN	EF-hand domain family, member A2	316						integral to membrane	calcium ion binding			skin(1)	1				Colorectal(111;0.0686)|COAD - Colon adenocarcinoma(73;0.239)		ACACTGAGACGTAACACAAGC	0.388													22	256					0	0	0.007291	0	0	
CNOT7	29883	broad.mit.edu	37	8	17092325	17092325	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:17092325T>C	uc003wxf.1	-	5	686	c.518A>G	c.(517-519)AAC>AGC	p.N173S	CNOT7_uc003wxg.1_Missense_Mutation_p.N173S|CNOT7_uc003wxh.1_Missense_Mutation_p.N173S	NM_013354	NP_037486	Q9UIV1	CNOT7_HUMAN	CCR4-NOT transcription complex, subunit 7	173					carbohydrate metabolic process|nuclear-transcribed mRNA poly(A) tail shortening	CCR4-NOT complex|cytoplasmic mRNA processing body|cytosol	nucleic acid binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			central_nervous_system(1)	1				Colorectal(111;0.0523)|COAD - Colon adenocarcinoma(73;0.209)		TTCAGGCAAGTTAGAGTTGGT	0.338													8	85					0	0	0.004482	0	0	
PCM1	5108	broad.mit.edu	37	8	17824576	17824576	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:17824576G>A	uc003wyi.3	+	21	3731	c.3309G>A	c.(3307-3309)TCG>TCA	p.S1103S	PCM1_uc011kyh.1_Silent_p.S1103S|PCM1_uc003wyj.3_Silent_p.S1104S	NM_006197	NP_006188	Q15154	PCM1_HUMAN	pericentriolar material 1	1103					centrosome organization|cilium assembly|G2/M transition of mitotic cell cycle|interkinetic nuclear migration|microtubule anchoring|negative regulation of neurogenesis|protein localization to centrosome	centriolar satellite|cytosol|nuclear membrane|pericentriolar material	identical protein binding		PCM1/JAK2(30)	haematopoietic_and_lymphoid_tissue(30)|breast(4)|ovary(2)	36				Colorectal(111;0.0789)		GTAGTGCATCGCACCCTCCTT	0.403			T	RET|JAK2	papillary thyroid|CML|MPD								6	21					0	0	0.001984	0	0	
PSD3	23362	broad.mit.edu	37	8	18725364	18725364	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:18725364C>T	uc003wza.2	-	4	1557	c.1454G>A	c.(1453-1455)CGC>CAC	p.R485H		NM_015310	NP_056125	Q9NYI0	PSD3_HUMAN	ADP-ribosylation factor guanine nucleotide	485					regulation of ARF protein signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3				Colorectal(111;0.0281)|READ - Rectum adenocarcinoma(644;0.183)		TTCTTTAATGCGCTGTTGTAT	0.463													30	147					0	0	0.002836	0	0	
CSGALNACT1	55790	broad.mit.edu	37	8	19263549	19263549	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:19263549G>A	uc011kyn.1	-	10	2405	c.1341C>T	c.(1339-1341)GGC>GGT	p.G447G	CSGALNACT1_uc011kyo.1_Silent_p.G447G|CSGALNACT1_uc003wzg.2_RNA|CSGALNACT1_uc011kyp.1_Silent_p.G446G	NM_001130518	NP_001123990	Q8TDX6	CGAT1_HUMAN	chondroitin sulfate	447	Lumenal (Potential).				anatomical structure morphogenesis|cell proliferation|cell recognition|chondroitin sulfate biosynthetic process|chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|dermatan sulfate proteoglycan biosynthetic process|extracellular matrix organization|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|heparin biosynthetic process|nervous system development|UDP-glucuronate metabolic process|UDP-N-acetylgalactosamine metabolic process	Golgi cisterna membrane|integral to Golgi membrane|soluble fraction	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|glucuronosyltransferase activity|glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|peptidoglycan glycosyltransferase activity			central_nervous_system(2)|ovary(1)	3				Colorectal(111;0.182)		CATCCTCTCCGCCCCAGCCTT	0.527													6	99					0	0	0.001984	0	0	
CSGALNACT1	55790	broad.mit.edu	37	8	19362852	19362852	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:19362852C>T	uc011kyn.1	-	4	1558	c.494G>A	c.(493-495)CGC>CAC	p.R165H	CSGALNACT1_uc011kyo.1_Missense_Mutation_p.R165H|CSGALNACT1_uc003wzg.2_RNA|CSGALNACT1_uc011kyp.1_Missense_Mutation_p.R164H|CSGALNACT1_uc003wzh.2_RNA	NM_001130518	NP_001123990	Q8TDX6	CGAT1_HUMAN	chondroitin sulfate	165	Lumenal (Potential).				anatomical structure morphogenesis|cell proliferation|cell recognition|chondroitin sulfate biosynthetic process|chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|dermatan sulfate proteoglycan biosynthetic process|extracellular matrix organization|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|heparin biosynthetic process|nervous system development|UDP-glucuronate metabolic process|UDP-N-acetylgalactosamine metabolic process	Golgi cisterna membrane|integral to Golgi membrane|soluble fraction	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|glucuronosyltransferase activity|glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|peptidoglycan glycosyltransferase activity			central_nervous_system(2)|ovary(1)	3				Colorectal(111;0.182)		CTCGGGGTGGCGGGTAAGGCC	0.557													10	22					0	0	0.008291	0	0	
SLC18A1	6570	broad.mit.edu	37	8	20008198	20008198	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:20008198A>G	uc011kyq.1	-	12	1544	c.1073T>C	c.(1072-1074)GTG>GCG	p.V358A	SLC18A1_uc003wzl.2_Missense_Mutation_p.V145A|SLC18A1_uc003wzm.2_Missense_Mutation_p.V358A|SLC18A1_uc011kyr.1_Missense_Mutation_p.V358A|SLC18A1_uc003wzn.2_Missense_Mutation_p.V326A|SLC18A1_uc010ltf.2_RNA|SLC18A1_uc003wzo.2_Missense_Mutation_p.V326A	NM_001135691	NP_001129163	P54219	VMAT1_HUMAN	solute carrier family 18 (vesicular monoamine),	358	Helical; (Potential).				neurotransmitter transport	clathrin sculpted monoamine transport vesicle membrane|integral to membrane|membrane fraction	drug transmembrane transporter activity|monoamine transmembrane transporter activity			ovary(2)	2				Colorectal(74;0.0747)		GTTGGCCAACACACCAAAGAG	0.493													23	109					0	0	0.007291	0	0	
LZTS1	11178	broad.mit.edu	37	8	20107710	20107710	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:20107710G>A	uc003wzr.2	-	3	1425	c.1314C>T	c.(1312-1314)GGC>GGT	p.G438G	LZTS1_uc010ltg.1_Silent_p.G438G	NM_021020	NP_066300	Q9Y250	LZTS1_HUMAN	leucine zipper, putative tumor suppressor 1	438					cell cycle|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	cell junction|dendritic spine|Golgi apparatus|nucleolus|nucleoplasm|postsynaptic density|postsynaptic membrane	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				Colorectal(74;0.0511)|COAD - Colon adenocarcinoma(73;0.207)		TGCGCAGGGCGCCCTCCAGGT	0.647													14	62					0	0	0.002450	0	0	
HR	55806	broad.mit.edu	37	8	21986447	21986447	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:21986447C>A	uc003xas.2	-	2	902	c.237G>T	c.(235-237)GAG>GAT	p.E79D	HR_uc003xat.2_Missense_Mutation_p.E79D|HR_uc010lts.2_Missense_Mutation_p.E79D	NM_005144	NP_005135	O43593	HAIR_HUMAN	hairless protein isoform a	79							DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|ovary(1)	2		Breast(100;0.000162)|Acute lymphoblastic leukemia(644;0.0775)|Prostate(55;0.116)		KIRC - Kidney renal clear cell carcinoma(542;1.19e-05)|BRCA - Breast invasive adenocarcinoma(99;3.56e-05)|Colorectal(74;0.00191)|COAD - Colon adenocarcinoma(73;0.0615)|READ - Rectum adenocarcinoma(644;0.1)		TCTGGGGGCCCTCGCCCTCCA	0.657													5	21					0.00448238	0.00465074	0.004482	1	0	
BMP1	649	broad.mit.edu	37	8	22053019	22053019	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:22053019C>T	uc003xbg.2	+	13	1928	c.1684C>T	c.(1684-1686)CGG>TGG	p.R562W	BMP1_uc003xba.2_Missense_Mutation_p.R562W|BMP1_uc003xbb.2_Missense_Mutation_p.R562W|BMP1_uc003xbe.2_RNA|BMP1_uc003xbc.2_Missense_Mutation_p.R311W|BMP1_uc003xbd.2_RNA|BMP1_uc003xbf.2_Missense_Mutation_p.R311W|BMP1_uc011kzc.1_Missense_Mutation_p.R311W|BMP1_uc003xbh.2_RNA|BMP1_uc003xbi.2_RNA	NM_006129	NP_006120	P13497	BMP1_HUMAN	bone morphogenetic protein 1 isoform 3	562	EGF-like 1; calcium-binding (Potential).				cartilage condensation|cell differentiation|lipid metabolic process|lipoprotein metabolic process|ossification|positive regulation of cartilage development|proteolysis	extracellular space	calcium ion binding|cytokine activity|growth factor activity|metalloendopeptidase activity|zinc ion binding			ovary(2)|breast(1)	3				Colorectal(74;0.00229)|COAD - Colon adenocarcinoma(73;0.0661)|READ - Rectum adenocarcinoma(644;0.11)		CTGTGAGCAGCGGTGCCTCAA	0.647													6	25					0	0	0.001168	0	0	
ENTPD4	9583	broad.mit.edu	37	8	23294525	23294525	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:23294525G>A	uc003xdl.2	-	10	1460	c.1296C>T	c.(1294-1296)TCC>TCT	p.S432S	ENTPD4_uc011kzu.1_Silent_p.S424S|ENTPD4_uc003xdm.2_Silent_p.S424S|ENTPD4_uc011kzv.1_Silent_p.S432S	NM_004901	NP_004892	Q9Y227	ENTP4_HUMAN	ectonucleoside triphosphate diphosphohydrolase 4	432	Lumenal (Potential).				UDP catabolic process	autophagic vacuole membrane|cytoplasmic vesicle|integral to Golgi membrane	uridine-diphosphatase activity			ovary(1)|kidney(1)	2		Prostate(55;0.114)		Colorectal(74;0.0161)|COAD - Colon adenocarcinoma(73;0.0649)		AGTAGAATTCGGAGAAGCCAT	0.473													8	63					0	0	0.000978	0	0	
ENTPD4	9583	broad.mit.edu	37	8	23299095	23299095	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:23299095G>A	uc003xdl.2	-	8	1033	c.869C>T	c.(868-870)GCG>GTG	p.A290V	ENTPD4_uc011kzu.1_Intron|ENTPD4_uc003xdm.2_Intron|ENTPD4_uc011kzv.1_Missense_Mutation_p.A290V	NM_004901	NP_004892	Q9Y227	ENTP4_HUMAN	ectonucleoside triphosphate diphosphohydrolase 4	290	Lumenal (Potential).				UDP catabolic process	autophagic vacuole membrane|cytoplasmic vesicle|integral to Golgi membrane	uridine-diphosphatase activity			ovary(1)|kidney(1)	2		Prostate(55;0.114)		Colorectal(74;0.0161)|COAD - Colon adenocarcinoma(73;0.0649)		CTGTGAGGACGCAAAGCTTAC	0.463													47	63					0	0	0.003610	0	0	
STC1	6781	broad.mit.edu	37	8	23702305	23702305	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:23702305C>T	uc003xdw.1	-	4	1006	c.722G>A	c.(721-723)CGC>CAC	p.R241H		NM_003155	NP_003146	P52823	STC1_HUMAN	stanniocalcin 1 precursor	241					cell surface receptor linked signaling pathway|cell-cell signaling|cellular calcium ion homeostasis		hormone activity			skin(3)|upper_aerodigestive_tract(1)	4		Prostate(55;0.055)|Breast(100;0.116)		Colorectal(74;0.0155)|COAD - Colon adenocarcinoma(73;0.0632)		ATGGGATGTGCGTTTGATGTG	0.507													8	45					0	0	0.004482	0	0	
ADAM7	8756	broad.mit.edu	37	8	24339818	24339818	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:24339818T>C	uc003xeb.2	+	9	982	c.869T>C	c.(868-870)TTA>TCA	p.L290S	ADAM7_uc003xec.2_Missense_Mutation_p.L62S	NM_003817	NP_003808	Q9H2U9	ADAM7_HUMAN	a disintegrin and metalloproteinase domain 7	290	Peptidase M12B.|Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(1)|kidney(1)	5		Prostate(55;0.0181)		Colorectal(74;0.0199)|COAD - Colon adenocarcinoma(73;0.0754)|BRCA - Breast invasive adenocarcinoma(99;0.182)		CATGTTGTATTACTCAGGTTG	0.274													4	94					0	0	0.009096	0	0	
NEFM	4741	broad.mit.edu	37	8	24771638	24771638	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:24771638G>A	uc003xed.3	+	1	365	c.332G>A	c.(331-333)CGC>CAC	p.R111H	NEFM_uc011lac.1_Missense_Mutation_p.R111H|NEFM_uc010lue.2_5'Flank|uc010luc.1_3'UTR	NM_005382	NP_005373	P07197	NFM_HUMAN	neurofilament, medium polypeptide 150kDa isoform	111	Rod.|Coil 1A.					neurofilament	protein binding|structural constituent of cytoskeleton			breast(1)	1		Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)		CTGAACGACCGCTTTGCCGGC	0.642													7	15					0	0	0.000978	0	0	
NEFM	4741	broad.mit.edu	37	8	24771747	24771747	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:24771747C>T	uc003xed.3	+	1	474	c.441C>T	c.(439-441)GGC>GGT	p.G147G	NEFM_uc011lac.1_Silent_p.G147G|NEFM_uc010lue.2_5'Flank|uc010luc.1_3'UTR	NM_005382	NP_005373	P07197	NFM_HUMAN	neurofilament, medium polypeptide 150kDa isoform	147	Linker 1.|Rod.					neurofilament	protein binding|structural constituent of cytoskeleton			breast(1)	1		Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)		CCCAGCTGGGCGACGCGTACG	0.632													5	5					0	0	0.000602	0	0	
EBF2	64641	broad.mit.edu	37	8	25708132	25708132	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:25708132G>A	uc003xes.1	-	15	1691	c.1674C>T	c.(1672-1674)AGC>AGT	p.S558S	PPP2R2A_uc003xek.2_Intron|EBF2_uc010lug.1_RNA	NM_022659	NP_073150	Q9HAK2	COE2_HUMAN	early B-cell factor 2	558					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding			ovary(3)|skin(1)	4		all_cancers(63;0.0989)|Ovarian(32;2.74e-05)|all_epithelial(46;0.0608)|Prostate(55;0.0845)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0277)|Epithelial(17;3.29e-10)|Colorectal(74;0.00383)|COAD - Colon adenocarcinoma(73;0.00738)		TTCCATTGCCGCTGGAGCAGG	0.488													17	58					0	0	0.008871	0	0	
ADRA1A	148	broad.mit.edu	37	8	26722237	26722237	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:26722237C>T	uc003xfh.1	-	1	686	c.250G>A	c.(250-252)GCC>ACC	p.A84T	ADRA1A_uc003xfc.1_Missense_Mutation_p.A84T|ADRA1A_uc010lul.1_Missense_Mutation_p.A84T|ADRA1A_uc003xfd.1_RNA|ADRA1A_uc003xfe.1_Missense_Mutation_p.A84T|ADRA1A_uc010lum.1_Missense_Mutation_p.A84T|ADRA1A_uc003xff.1_RNA|ADRA1A_uc003xfg.1_Missense_Mutation_p.A84T	NM_000680	NP_000671	P35348	ADA1A_HUMAN	alpha-1A-adrenergic receptor isoform 1	84	Helical; Name=2; (By similarity).				activation of phospholipase C activity|aging|apoptosis|calcium ion transport into cytosol|cell-cell signaling|intracellular protein kinase cascade|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of synaptic transmission, GABAergic|positive regulation of action potential|positive regulation of cardiac muscle contraction|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein kinase C signaling cascade|positive regulation of vasoconstriction|response to drug|response to hormone stimulus|response to stress|smooth muscle contraction	integral to plasma membrane	alpha1-adrenergic receptor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5		all_cancers(63;0.122)|Ovarian(32;2.61e-05)|all_epithelial(46;0.118)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|Epithelial(17;4.92e-10)|Colorectal(74;0.0132)|READ - Rectum adenocarcinoma(644;0.115)	Alfuzosin(DB00346)|Amiodarone(DB01118)|Amphetamine(DB00182)|Benzphetamine(DB00865)|Bethanidine(DB00217)|Carvedilol(DB01136)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Dextroamphetamine(DB01576)|Doxazosin(DB00590)|Epinastine(DB00751)|Epinephrine(DB00668)|Ergotamine(DB00696)|Flupenthixol(DB00875)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Labetalol(DB00598)|Lisdexamfetamine(DB01255)|Maprotiline(DB00934)|Mephentermine(DB01365)|Metaraminol(DB00610)|Methamphetamine(DB01577)|Methotrimeprazine(DB01403)|Methoxamine(DB00723)|Midodrine(DB00211)|Nefazodone(DB01149)|Nicergoline(DB00699)|Nilutamide(DB00665)|Norepinephrine(DB00368)|Norgestrel(DB00506)|Oxymetazoline(DB00935)|Perphenazine(DB00850)|Phendimetrazine(DB01579)|Phenoxybenzamine(DB00925)|Phenylephrine(DB00388)|Phenylpropanolamine(DB00397)|Prazosin(DB00457)|Promazine(DB00420)|Promethazine(DB01069)|Propericiazine(DB01608)|Propiomazine(DB00777)|Pseudoephedrine(DB00852)|Risperidone(DB00734)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)|Thioridazine(DB00679)|Tolazoline(DB00797)|Trazodone(DB00656)|Trifluoperazine(DB00831)|Ziprasidone(DB00246)	TCGAAGATGGCGGAGAAGGGC	0.627													22	88					0	0	0.003330	0	0	
ADRA1A	148	broad.mit.edu	37	8	26722276	26722276	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:26722276C>T	uc003xfh.1	-	1	647	c.211G>A	c.(211-213)GCC>ACC	p.A71T	ADRA1A_uc003xfc.1_Missense_Mutation_p.A71T|ADRA1A_uc010lul.1_Missense_Mutation_p.A71T|ADRA1A_uc003xfd.1_RNA|ADRA1A_uc003xfe.1_Missense_Mutation_p.A71T|ADRA1A_uc010lum.1_Missense_Mutation_p.A71T|ADRA1A_uc003xff.1_RNA|ADRA1A_uc003xfg.1_Missense_Mutation_p.A71T	NM_000680	NP_000671	P35348	ADA1A_HUMAN	alpha-1A-adrenergic receptor isoform 1	71	Helical; Name=2; (By similarity).				activation of phospholipase C activity|aging|apoptosis|calcium ion transport into cytosol|cell-cell signaling|intracellular protein kinase cascade|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of synaptic transmission, GABAergic|positive regulation of action potential|positive regulation of cardiac muscle contraction|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein kinase C signaling cascade|positive regulation of vasoconstriction|response to drug|response to hormone stimulus|response to stress|smooth muscle contraction	integral to plasma membrane	alpha1-adrenergic receptor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5		all_cancers(63;0.122)|Ovarian(32;2.61e-05)|all_epithelial(46;0.118)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|Epithelial(17;4.92e-10)|Colorectal(74;0.0132)|READ - Rectum adenocarcinoma(644;0.115)	Alfuzosin(DB00346)|Amiodarone(DB01118)|Amphetamine(DB00182)|Benzphetamine(DB00865)|Bethanidine(DB00217)|Carvedilol(DB01136)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Dextroamphetamine(DB01576)|Doxazosin(DB00590)|Epinastine(DB00751)|Epinephrine(DB00668)|Ergotamine(DB00696)|Flupenthixol(DB00875)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Labetalol(DB00598)|Lisdexamfetamine(DB01255)|Maprotiline(DB00934)|Mephentermine(DB01365)|Metaraminol(DB00610)|Methamphetamine(DB01577)|Methotrimeprazine(DB01403)|Methoxamine(DB00723)|Midodrine(DB00211)|Nefazodone(DB01149)|Nicergoline(DB00699)|Nilutamide(DB00665)|Norepinephrine(DB00368)|Norgestrel(DB00506)|Oxymetazoline(DB00935)|Perphenazine(DB00850)|Phendimetrazine(DB01579)|Phenoxybenzamine(DB00925)|Phenylephrine(DB00388)|Phenylpropanolamine(DB00397)|Prazosin(DB00457)|Promazine(DB00420)|Promethazine(DB01069)|Propericiazine(DB01608)|Propiomazine(DB00777)|Pseudoephedrine(DB00852)|Risperidone(DB00734)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)|Thioridazine(DB00679)|Tolazoline(DB00797)|Trazodone(DB00656)|Trifluoperazine(DB00831)|Ziprasidone(DB00246)	AGGAGGTCGGCCACCGCCAGG	0.607													26	125					0	0	0.009535	0	0	
C8orf80	389643	broad.mit.edu	37	8	27922179	27922179	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:27922179C>T	uc003xgm.3	-	7	924	c.781G>A	c.(781-783)GCT>ACT	p.A261T		NM_001010906	NP_001010906	Q68CJ6	SLIP_HUMAN	speckled-like pattern in the germinal center	261						nucleus	GTP binding|GTPase activity			ovary(1)|central_nervous_system(1)	2		Ovarian(32;0.0218)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|KIRC - Kidney renal clear cell carcinoma(542;0.126)|Kidney(114;0.15)|Colorectal(74;0.181)		CGCATCTCAGCGGCCTCTCCA	0.562													5	38					0	0	0.001168	0	0	
ZNF395	55893	broad.mit.edu	37	8	28214286	28214286	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:28214286C>T	uc003xgq.2	-	4	572	c.484G>A	c.(484-486)GCA>ACA	p.A162T	ZNF395_uc003xgt.2_Missense_Mutation_p.A162T|ZNF395_uc003xgr.2_Missense_Mutation_p.A162T|ZNF395_uc003xgs.2_Missense_Mutation_p.A162T	NM_018660	NP_061130	Q9H8N7	ZN395_HUMAN	zinc finger protein 395	162					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding				0		Ovarian(32;2.06e-05)		KIRC - Kidney renal clear cell carcinoma(542;0.102)|Kidney(114;0.123)|Colorectal(74;0.142)		ATTTCCACTGCGTCCGACTTC	0.572													4	9					0	0	0.000602	0	0	
FZD3	7976	broad.mit.edu	37	8	28385115	28385115	+	Nonsense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:28385115G>T	uc003xgx.2	+	5	1316	c.838G>T	c.(838-840)GGA>TGA	p.G280*	FZD3_uc010lvb.2_Nonsense_Mutation_p.G280*	NM_017412	NP_059108	Q9NPG1	FZD3_HUMAN	frizzled 3 precursor	280	Extracellular (Potential).				canonical Wnt receptor signaling pathway|cell proliferation in midbrain|commissural neuron axon guidance|establishment of planar polarity|facial nucleus development|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|inner ear morphogenesis|neural tube closure|vasculature development	apical part of cell|axon|cytoplasm|dendrite|integral to membrane|neuron projection membrane|neuronal cell body|presynaptic active zone	G-protein coupled receptor activity|PDZ domain binding|Wnt-protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(32;2.06e-05)		KIRC - Kidney renal clear cell carcinoma(542;0.109)|Kidney(114;0.13)|Colorectal(74;0.23)		AGTGACACAAGGATCTCATAA	0.383													8	126					3.09899e-07	3.29863e-07	0.004482	1	0	
FZD3	7976	broad.mit.edu	37	8	28385354	28385354	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:28385354C>T	uc003xgx.2	+	5	1555	c.1077C>T	c.(1075-1077)GGC>GGT	p.G359G	FZD3_uc010lvb.2_Silent_p.G359G	NM_017412	NP_059108	Q9NPG1	FZD3_HUMAN	frizzled 3 precursor	359	Extracellular (Potential).				canonical Wnt receptor signaling pathway|cell proliferation in midbrain|commissural neuron axon guidance|establishment of planar polarity|facial nucleus development|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|inner ear morphogenesis|neural tube closure|vasculature development	apical part of cell|axon|cytoplasm|dendrite|integral to membrane|neuron projection membrane|neuronal cell body|presynaptic active zone	G-protein coupled receptor activity|PDZ domain binding|Wnt-protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(32;2.06e-05)		KIRC - Kidney renal clear cell carcinoma(542;0.109)|Kidney(114;0.13)|Colorectal(74;0.23)		ATATTAGTGGCGTGTGTTTTG	0.453													5	86					0	0	0.001168	0	0	
EXTL3	2137	broad.mit.edu	37	8	28575031	28575031	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:28575031G>A	uc003xgz.1	+	3	2048	c.1455G>A	c.(1453-1455)GTG>GTA	p.V485V		NM_001440	NP_001431	O43909	EXTL3_HUMAN	exostoses-like 3	485	Lumenal (Potential).					integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronyl-galactosyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|metal ion binding|protein binding			skin(2)	2		Ovarian(32;0.069)		KIRC - Kidney renal clear cell carcinoma(542;0.107)|Kidney(114;0.129)|Colorectal(74;0.228)		CCCTGGTGGTGCCAAAGCCTC	0.617													6	47					0	0	0.003080	0	0	
EXTL3	2137	broad.mit.edu	37	8	28600685	28600685	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:28600685C>T	uc003xgz.1	+	6	3097	c.2504C>T	c.(2503-2505)GCC>GTC	p.A835V		NM_001440	NP_001431	O43909	EXTL3_HUMAN	exostoses-like 3	835	Lumenal (Potential).					integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronyl-galactosyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|metal ion binding|protein binding			skin(2)	2		Ovarian(32;0.069)		KIRC - Kidney renal clear cell carcinoma(542;0.107)|Kidney(114;0.129)|Colorectal(74;0.228)		GAGGACATTGCCATGAACTTC	0.507													23	113					0	0	0.002299	0	0	
HMBOX1	79618	broad.mit.edu	37	8	28876412	28876412	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:28876412G>A	uc003xhd.3	+	6	1175	c.833G>A	c.(832-834)TGC>TAC	p.C278Y	HMBOX1_uc010lvd.2_Missense_Mutation_p.C278Y|HMBOX1_uc003xhc.3_Missense_Mutation_p.C278Y|HMBOX1_uc010lve.2_RNA|HMBOX1_uc003xhe.2_Missense_Mutation_p.C278Y|HMBOX1_uc011lay.1_Missense_Mutation_p.C278Y|HMBOX1_uc003xhf.2_Missense_Mutation_p.C266Y|HMBOX1_uc003xhg.2_Missense_Mutation_p.C266Y	NM_001135726	NP_001129198	Q6NT76	HMBX1_HUMAN	homeobox containing 1	278	Homeobox.				negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Ovarian(32;0.0192)		KIRC - Kidney renal clear cell carcinoma(542;0.135)|Kidney(114;0.161)		AGAAAGGAGTGCCTGGCTGTT	0.483													16	64					0	0	0.004007	0	0	
KIF13B	23303	broad.mit.edu	37	8	28967445	28967445	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:28967445C>T	uc003xhh.3	-	33	4132	c.4073G>A	c.(4072-4074)CGT>CAT	p.R1358H	uc003xhi.1_5'Flank	NM_015254	NP_056069	Q9NQT8	KI13B_HUMAN	kinesin family member 13B	1358					microtubule-based movement|protein targeting|signal transduction|T cell activation	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein kinase binding				0		Ovarian(32;0.000536)		KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)		CTGGCGCAGACGATCTAAAGT	0.522													4	17					0	0	0.000602	0	0	
GSR	2936	broad.mit.edu	37	8	30565642	30565642	+	Missense_Mutation	SNP	G	A	A	rs150594097		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:30565642G>A	uc003xih.1	-	4	530	c.439C>T	c.(439-441)CGG>TGG	p.R147W		NM_000637	NP_000628	P00390	GSHR_HUMAN	glutathione reductase precursor	147					cell redox homeostasis|nucleobase, nucleoside and nucleotide interconversion	cytosol|mitochondrion	electron carrier activity|glutathione-disulfide reductase activity			ovary(2)|pancreas(2)|central_nervous_system(1)	5				KIRC - Kidney renal clear cell carcinoma(542;0.105)|Kidney(114;0.125)	Carmustine(DB00262)|Glutathione(DB00143)|NADH(DB00157)	TAGGCATCCCGCTTTTCCTTA	0.443													9	88					0	0	0.008291	0	0	
PPP2CB	5516	broad.mit.edu	37	8	30651531	30651531	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:30651531G>A	uc003xik.2	-	6	875	c.640C>T	c.(640-642)CGT>TGT	p.R214C		NM_004156	NP_004147	P62714	PP2AB_HUMAN	protein phosphatase 2, catalytic subunit, beta	214					protein dephosphorylation	chromosome, centromeric region|cytoplasm|nucleus|protein phosphatase type 2A complex|spindle pole	metal ion binding				0				KIRC - Kidney renal clear cell carcinoma(542;0.095)|Kidney(114;0.114)	Vitamin E(DB00163)	CCAGCACCACGTGGTGAAATA	0.448													5	19					0	0	0.001168	0	0	
UNC5D	137970	broad.mit.edu	37	8	35544118	35544118	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:35544118A>G	uc003xjr.1	+	7	1303	c.975A>G	c.(973-975)GAA>GAG	p.E325E	UNC5D_uc003xjs.1_Silent_p.E320E|UNC5D_uc003xjt.1_Silent_p.E94E	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	325	Extracellular (Potential).|TSP type-1 2.				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		CAGAGTGTGAACATTTGCGGA	0.383													8	37					0	0	0.004482	0	0	
KCNU1	157855	broad.mit.edu	37	8	36780102	36780102	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:36780102G>A	uc010lvw.2	+	24	2778	c.2691G>A	c.(2689-2691)ACG>ACA	p.T897T	KCNU1_uc003xjw.2_RNA	NM_001031836	NP_001027006	A8MYU2	KCNU1_HUMAN	potassium channel, subfamily U, member 1	897	Segment S10.|Cytoplasmic (Potential).					voltage-gated potassium channel complex	binding|large conductance calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(67;0.0504)|Kidney(114;0.0634)		CCTTTTCTACGGGCACTGTTT	0.488													8	43					0	0	0.004482	0	0	
RAB11FIP1	80223	broad.mit.edu	37	8	37730004	37730004	+	Silent	SNP	C	T	T	rs148197928	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:37730004C>T	uc003xkm.1	-	4	2360	c.2316G>A	c.(2314-2316)GCG>GCA	p.A772A	RAB11FIP1_uc010lvz.1_Intron|RAB11FIP1_uc003xkn.1_Intron|RAB11FIP1_uc003xkl.1_Silent_p.A101A|RAB11FIP1_uc003xko.1_Silent_p.A101A|RAB11FIP1_uc003xkp.1_Intron	NM_001002814	NP_001002814	Q6WKZ4	RFIP1_HUMAN	RAB11 family interacting protein 1 isoform 3	772					protein transport	centrosome|phagocytic vesicle membrane|recycling endosome	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;3.62e-11)			GAAGAGGGGGCGCCACTTCTT	0.567													6	57					0	0	0.001168	0	0	
EIF4EBP1	1978	broad.mit.edu	37	8	37914773	37914773	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:37914773C>T	uc003xks.2	+	2	392	c.320C>T	c.(319-321)GCG>GTG	p.A107V		NM_004095	NP_004086	Q13541	4EBP1_HUMAN	eukaryotic translation initiation factor 4E	107					G1/S transition of mitotic cell cycle|insulin receptor signaling pathway|positive regulation of mitotic cell cycle|TOR signaling cascade|translation	cytosol					0	Colorectal(12;0.00627)	Lung NSC(58;0.118)|all_lung(54;0.195)				GATAAGCGGGCGGGCGGTGAG	0.622													8	24					0	0	0.006214	0	0	
FGFR1	2260	broad.mit.edu	37	8	38271528	38271528	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:38271528G>A	uc003xlp.2	-	18	3142	c.2200C>T	c.(2200-2202)CGG>TGG	p.R734W	FGFR1_uc010lwf.2_RNA|FGFR1_uc011lbo.1_Missense_Mutation_p.R732W|FGFR1_uc011lbp.1_Missense_Mutation_p.R645W|FGFR1_uc011lbq.1_Missense_Mutation_p.R643W|FGFR1_uc010lwk.2_Missense_Mutation_p.R724W	NM_023110	NP_075598	P11362	FGFR1_HUMAN	fibroblast growth factor receptor 1 isoform 1	734	Cytoplasmic (Potential).|Protein kinase.				axon guidance|cell growth|insulin receptor signaling pathway|MAPKKK cascade|positive regulation of cell proliferation|skeletal system development	extracellular region|integral to plasma membrane|membrane fraction	ATP binding|fibroblast growth factor receptor activity|heparin binding|protein homodimerization activity			lung(5)|central_nervous_system(5)|stomach(2)|breast(2)|ovary(1)	15	all_cancers(2;9.05e-47)|all_epithelial(2;2.64e-50)|all_lung(3;1.71e-23)|Lung NSC(2;3.61e-23)|Colorectal(12;0.000442)	Breast(189;1.48e-05)|all_lung(54;0.00354)|Lung NSC(58;0.0138)|Hepatocellular(245;0.065)	Epithelial(3;3.96e-34)|all cancers(3;3.06e-30)|BRCA - Breast invasive adenocarcinoma(5;2.28e-21)|COAD - Colon adenocarcinoma(9;0.24)		Palifermin(DB00039)	CAGCAGTCCCGCATCATCATG	0.597		1	T	BCR|FOP|ZNF198|CEP1	MPD|NHL		Pfeiffer syndrome|Kallman syndrome						7	18					0	0	0.006214	0	0	
C8orf86	389649	broad.mit.edu	37	8	38386081	38386081	+	Silent	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:38386081A>C	uc003xlx.1	-	1	100	c.75T>G	c.(73-75)CTT>CTG	p.L25L		NM_207412	NP_997295	Q6ZUL3	CH086_HUMAN	hypothetical protein LOC389649	25											0						GGCAGTCTCTAAGGCTCCTGC	0.557													9	60					0	0	0.008291	0	0	
TACC1	6867	broad.mit.edu	37	8	38677330	38677330	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:38677330G>A	uc010lwp.2	+	3	947	c.568G>A	c.(568-570)GCC>ACC	p.A190T	TACC1_uc011lby.1_5'UTR|TACC1_uc003xma.2_Intron|TACC1_uc003xlz.2_5'UTR|TACC1_uc003xmc.3_5'UTR|TACC1_uc011lbz.1_Missense_Mutation_p.A206T|TACC1_uc003xmb.3_Missense_Mutation_p.A145T|TACC1_uc003xme.1_Intron|TACC1_uc003xmd.1_Intron|TACC1_uc010lwo.1_Intron|TACC1_uc003xmf.3_Intron|TACC1_uc011lca.1_Missense_Mutation_p.A190T|TACC1_uc011lcb.1_5'UTR|TACC1_uc011lcc.1_5'UTR|TACC1_uc011lcd.1_RNA|TACC1_uc003xmh.3_5'UTR|TACC1_uc010lwq.2_5'UTR	NM_006283	NP_006274	O75410	TACC1_HUMAN	transforming, acidic coiled-coil containing	190	Interaction with TDRD7.				cell cycle|cell division	intermediate filament cytoskeleton|microtubule organizing center|nucleus	protein binding			ovary(1)	1		all_lung(54;0.00292)|Lung NSC(58;0.0115)|Hepatocellular(245;0.065)	LUSC - Lung squamous cell carcinoma(45;1.7e-09)|COAD - Colon adenocarcinoma(9;0.235)			CCCGCCAGACGCCCTCCAGGA	0.587													12	45					0	0	0.001368	0	0	
PLEKHA2	59339	broad.mit.edu	37	8	38810831	38810831	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:38810831G>A	uc003xmi.3	+	9	953	c.719G>A	c.(718-720)CGC>CAC	p.R240H	PLEKHA2_uc011lce.1_Missense_Mutation_p.R190H	NM_021623	NP_067636	Q9HB19	PKHA2_HUMAN	pleckstrin homology domain containing, family A	240	PH 2.				positive regulation of cell-matrix adhesion	cytoplasm|nucleus|plasma membrane|protein complex	fibronectin binding|laminin binding				0		all_lung(54;0.0413)|Lung NSC(58;0.115)|Hepatocellular(245;0.152)	LUSC - Lung squamous cell carcinoma(45;4.68e-08)|COAD - Colon adenocarcinoma(9;0.235)			GAACCACTGCGCACCATATTT	0.463													30	156					0	0	0.004878	0	0	
HTRA4	203100	broad.mit.edu	37	8	38832617	38832617	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:38832617G>A	uc003xmj.2	+	2	649	c.534G>A	c.(532-534)GCG>GCA	p.A178A		NM_153692	NP_710159	P83105	HTRA4_HUMAN	HtrA serine peptidase 4 precursor	178					proteolysis|regulation of cell growth	extracellular region	insulin-like growth factor binding|serine-type endopeptidase activity				0		all_lung(54;0.0344)|Hepatocellular(245;0.0512)|Lung NSC(58;0.0955)	LUSC - Lung squamous cell carcinoma(45;1.5e-07)			AGAAGGTGGCGCCATCGGTGG	0.577													21	63					0	0	0.010504	0	0	
HTRA4	203100	broad.mit.edu	37	8	38839212	38839212	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:38839212A>G	uc003xmj.2	+	6	1155	c.1040A>G	c.(1039-1041)GAT>GGT	p.D347G		NM_153692	NP_710159	P83105	HTRA4_HUMAN	HtrA serine peptidase 4 precursor	347	Serine protease.				proteolysis|regulation of cell growth	extracellular region	insulin-like growth factor binding|serine-type endopeptidase activity				0		all_lung(54;0.0344)|Hepatocellular(245;0.0512)|Lung NSC(58;0.0955)	LUSC - Lung squamous cell carcinoma(45;1.5e-07)			AGGGTGACTGATGGAATCTCC	0.438													6	111					0	0	0.001984	0	0	
ANK1	286	broad.mit.edu	37	8	41551549	41551549	+	Silent	SNP	G	A	A	rs117516263	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:41551549G>A	uc003xok.2	-	29	3483	c.3399C>T	c.(3397-3399)ACC>ACT	p.T1133T	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoh.2_Silent_p.T449T|ANK1_uc003xoi.2_Silent_p.T1133T|ANK1_uc003xoj.2_Silent_p.T1133T|ANK1_uc003xol.2_Silent_p.T1133T|ANK1_uc003xom.2_Silent_p.T1174T	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	1133					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)			GGGGCTCCACGGTGACAATGG	0.632													5	18					0	0	0.004482	0	0	
ANK1	286	broad.mit.edu	37	8	41553956	41553956	+	Missense_Mutation	SNP	G	A	A	rs140978700		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:41553956G>A	uc003xok.2	-	26	2969	c.2885C>T	c.(2884-2886)CCG>CTG	p.P962L	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoh.2_Missense_Mutation_p.P278L|ANK1_uc003xoi.2_Missense_Mutation_p.P962L|ANK1_uc003xoj.2_Missense_Mutation_p.P962L|ANK1_uc003xol.2_Missense_Mutation_p.P962L|ANK1_uc003xom.2_Missense_Mutation_p.P1003L	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	962	ZU5.				axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			CAGTGGGGGCGGCGTGCTGAG	0.706													4	23					0	0	0.001168	0	0	
MYST3	7994	broad.mit.edu	37	8	41790423	41790423	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:41790423C>T	uc010lxb.2	-	18	5859	c.5315G>A	c.(5314-5316)AGC>AAC	p.S1772N	MYST3_uc010lxc.2_Missense_Mutation_p.S1772N|MYST3_uc003xon.3_Missense_Mutation_p.S1772N	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	1772					histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			AGGAGAATGGCTATAAGGCAT	0.532													15	168					0	0	0.004007	0	0	
MYST3	7994	broad.mit.edu	37	8	41791549	41791549	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:41791549C>T	uc010lxb.2	-	18	4733	c.4189G>A	c.(4189-4191)GAA>AAA	p.E1397K	MYST3_uc010lxc.2_Missense_Mutation_p.E1397K|MYST3_uc003xon.3_Missense_Mutation_p.E1397K	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	1397					histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			GAGTCTTCTTCGTGGTCGTCC	0.502													8	77					0	0	0.006214	0	0	
PLAT	5327	broad.mit.edu	37	8	42038027	42038027	+	Missense_Mutation	SNP	C	T	T	rs140012141		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:42038027C>T	uc003xos.2	-	10	1275	c.1066G>A	c.(1066-1068)GCC>ACC	p.A356T	PLAT_uc010lxf.1_Missense_Mutation_p.A273T|PLAT_uc010lxg.1_Missense_Mutation_p.A181T|PLAT_uc003xot.2_Missense_Mutation_p.A310T|PLAT_uc011lcm.1_Missense_Mutation_p.A267T|PLAT_uc011lcn.1_Missense_Mutation_p.A230T	NM_000930	NP_000921	P00750	TPA_HUMAN	plasminogen activator, tissue isoform 1	356	Peptidase S1.				blood coagulation|fibrinolysis|negative regulation of proteolysis|protein modification process|proteolysis	cell surface|cytoplasm|extracellular space	protein binding|serine-type endopeptidase activity			breast(1)|skin(1)	2	all_cancers(6;3.84e-26)|all_epithelial(6;9.61e-28)|all_lung(13;7.2e-13)|Lung NSC(13;1.18e-11)|Ovarian(28;0.00438)|Prostate(17;0.0119)|Colorectal(14;0.0468)|Lung SC(25;0.211)	all_lung(54;0.000378)|Lung NSC(58;0.00145)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	BRCA - Breast invasive adenocarcinoma(8;5.23e-10)|OV - Ovarian serous cystadenocarcinoma(14;0.00135)|Colorectal(10;0.00165)|Lung(22;0.00467)|COAD - Colon adenocarcinoma(11;0.0171)|LUSC - Lung squamous cell carcinoma(45;0.024)		Alteplase(DB00009)|Aminocaproic Acid(DB00513)|Anistreplase(DB00029)|Iloprost(DB01088)|Reteplase(DB00015)|Tenecteplase(DB00031)|Tranexamic Acid(DB00302)|Urokinase(DB00013)	AAGCAGTGGGCGGCAGAGAGA	0.592													12	64					0	0	0.004007	0	0	
CHRNB3	1142	broad.mit.edu	37	8	42587066	42587066	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:42587066G>A	uc003xpi.1	+	5	744	c.616G>A	c.(616-618)GCA>ACA	p.A206T		NM_000749	NP_000740	Q05901	ACHB3_HUMAN	cholinergic receptor, nicotinic, beta	206	Extracellular (Potential).				synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	nicotinic acetylcholine-activated cation-selective channel activity|receptor activity			ovary(1)	1	all_lung(13;5.7e-12)|Lung NSC(13;1.6e-10)|Ovarian(28;0.00579)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00026)|Lung NSC(58;0.000992)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	Lung(22;0.0199)|LUSC - Lung squamous cell carcinoma(45;0.0869)			AATACTGAACGCAAAGGGGAT	0.453													7	96					0	0	0.003080	0	0	
CHRNB3	1142	broad.mit.edu	37	8	42587142	42587142	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:42587142G>A	uc003xpi.1	+	5	820	c.692G>A	c.(691-693)CGC>CAC	p.R231H		NM_000749	NP_000740	Q05901	ACHB3_HUMAN	cholinergic receptor, nicotinic, beta	231	Extracellular (Potential).				synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	nicotinic acetylcholine-activated cation-selective channel activity|receptor activity			ovary(1)	1	all_lung(13;5.7e-12)|Lung NSC(13;1.6e-10)|Ovarian(28;0.00579)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00026)|Lung NSC(58;0.000992)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	Lung(22;0.0199)|LUSC - Lung squamous cell carcinoma(45;0.0869)			GTCCTGAGACGCCTGCCTTTA	0.473													8	49					0	0	0.004482	0	0	
SGK196	84197	broad.mit.edu	37	8	42958728	42958728	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:42958728G>A	uc003xpw.2	+	4	296	c.37G>A	c.(37-39)GCC>ACC	p.A13T		NM_032237	NP_115613	Q9H5K3	SG196_HUMAN	protein kinase-like protein SgK196	13						integral to membrane	ATP binding|protein kinase activity				0						GAGAGGCCTCGCCCCCCGAGA	0.542													20	50					0	0	0.003330	0	0	
POTEA	340441	broad.mit.edu	37	8	43147674	43147674	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:43147674A>C	uc003xpz.1	+	1	90	c.47A>C	c.(46-48)AAG>ACG	p.K16T	POTEA_uc003xqa.1_Missense_Mutation_p.K16T	NM_001005365	NP_001005365	Q6S8J7	POTEA_HUMAN	POTE ankyrin domain family, member A isoform 2	16										ovary(1)	1						CCTATGAAGAAGCCCTTTGGC	0.562													9	53					0	0	0.000978	0	0	
PRKDC	5591	broad.mit.edu	37	8	48772316	48772316	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:48772316A>G	uc003xqi.2	-	47	6120	c.6063T>C	c.(6061-6063)GGT>GGC	p.G2021G	PRKDC_uc003xqj.2_Silent_p.G2021G|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	2021		Cleavage; by caspase-3 (Probable).			cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				TATAGGAAGGACCATCTGAAA	0.318								NHEJ					12	67					0	0	0.001855	0	0	
EFCAB1	79645	broad.mit.edu	37	8	49643974	49643974	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:49643974A>T	uc003xqo.2	-	2	307	c.147T>A	c.(145-147)GAT>GAA	p.D49E	EFCAB1_uc003xqn.3_Intron|EFCAB1_uc011ldj.1_Intron|EFCAB1_uc010lxx.2_Intron|EFCAB1_uc011ldk.1_Intron	NM_024593	NP_078869	Q9HAE3	EFCB1_HUMAN	EF-hand calcium binding domain 1 isoform a	49							calcium ion binding				0		all_epithelial(80;0.0134)|Lung NSC(129;0.0207)|all_lung(136;0.0464)				ATGCATTACGATCCAGTCCAA	0.368													18	64					0	0	0.007413	0	0	
SNAI2	6591	broad.mit.edu	37	8	49833817	49833817	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:49833817C>T	uc003xqp.2	-	1	172	c.8G>A	c.(7-9)CGC>CAC	p.R3H		NM_003068	NP_003059	O43623	SNAI2_HUMAN	snail 2	3					canonical Wnt receptor signaling pathway|ectoderm and mesoderm interaction|multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		all_cancers(86;0.0368)|all_epithelial(80;0.000624)|Lung NSC(129;0.0019)|all_lung(136;0.00502)				CAGGAAGGAGCGCGGCATCTT	0.587													5	63					0	0	0.000602	0	0	
PXDNL	137902	broad.mit.edu	37	8	52359707	52359707	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:52359707A>G	uc003xqu.3	-	12	1483	c.1382T>C	c.(1381-1383)GTG>GCG	p.V461A		NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	461	Ig-like C2-type 3.				hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				CTGGCCTTCCACAGGGAGCTG	0.517													5	115					0	0	0.000602	0	0	
ATP6V1H	51606	broad.mit.edu	37	8	54628573	54628573	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:54628573C>T	uc003xrl.2	-	14	1555	c.1403G>A	c.(1402-1404)GGC>GAC	p.G468D	ATP6V1H_uc003xrk.2_Missense_Mutation_p.G428D|ATP6V1H_uc003xrm.2_Missense_Mutation_p.G468D|ATP6V1H_uc003xrn.2_Missense_Mutation_p.G450D|ATP6V1H_uc011ldv.1_Missense_Mutation_p.G388D|ATP6V1H_uc010lyd.2_Missense_Mutation_p.G404D	NM_213620	NP_998785	Q9UI12	VATH_HUMAN	ATPase, H+ transporting, lysosomal 50/57kDa, V1	468					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|endocytosis|insulin receptor signaling pathway|interspecies interaction between organisms|regulation of defense response to virus by virus|transferrin transport|vacuolar acidification|viral reproduction	cytosol|plasma membrane|vacuolar proton-transporting V-type ATPase, V1 domain	enzyme regulator activity|protein binding|proton-transporting ATPase activity, rotational mechanism				0		all_epithelial(80;0.0487)|Lung NSC(129;0.109)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;2.79e-06)|Epithelial(17;0.000629)|all cancers(17;0.00359)			GAGCTGCTTGCCAAGGTATTC	0.488													6	12					0	0	0.001168	0	0	
RP1	6101	broad.mit.edu	37	8	55541823	55541823	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:55541823G>A	uc003xsd.1	+	4	5529	c.5381G>A	c.(5380-5382)GGC>GAC	p.G1794D	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	1794					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			TTGGCCCCAGGCCCAACGATG	0.458													6	32					0	0	0.001984	0	0	
XKR4	114786	broad.mit.edu	37	8	56436092	56436092	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:56436092A>G	uc003xsf.2	+	3	1291	c.1259A>G	c.(1258-1260)GAG>GGG	p.E420G		NM_052898	NP_443130	Q5GH76	XKR4_HUMAN	XK, Kell blood group complex subunit-related	420						integral to membrane				pancreas(2)	2			Epithelial(17;0.000117)|all cancers(17;0.000836)			GTCCACTGTGAGACAGAATTC	0.468													35	161					0	0	0.004878	0	0	
PLAG1	5324	broad.mit.edu	37	8	57078977	57078977	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:57078977C>T	uc003xsq.3	-	3	1779	c.1328G>A	c.(1327-1329)AGC>AAC	p.S443N	PLAG1_uc003xsr.3_Missense_Mutation_p.S443N|PLAG1_uc010lyi.2_Missense_Mutation_p.S443N|PLAG1_uc010lyj.2_Missense_Mutation_p.S361N	NM_001114635	NP_001108107	Q6DJT9	PLAG1_HUMAN	pleiomorphic adenoma gene 1 isoform b	443	Activates transcription; Inhibition of nuclear import due to lack of NLS and KPNA2 interaction.|Massively activates transcription.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding		CTNNB1/PLAG1(60)|FGFR1_ENST00000447712/PLAG1(28)|CHCHD7/PLAG1(12)|LIFR_ENST00000263409/PLAG1(10)|HAS2/PLAG1(10)|COL1A2/PLAG1(3)|TCEA1_ENST00000521604/PLAG1(3)	salivary_gland(113)|soft_tissue(13)|lung(1)|central_nervous_system(1)|breast(1)	129		all_lung(136;0.0548)|Lung NSC(129;0.0718)|all_epithelial(80;0.125)	Epithelial(17;0.00179)|all cancers(17;0.0125)			CTGGGAATAGCTCATTCCAAG	0.463			T	TCEA1|LIFR|CTNNB1|CHCHD7	salivary adenoma								13	89					0	0	0.002450	0	0	
PLAG1	5324	broad.mit.edu	37	8	57079635	57079635	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:57079635G>A	uc003xsq.3	-	3	1121	c.670C>T	c.(670-672)CGA>TGA	p.R224*	PLAG1_uc003xsr.3_Nonsense_Mutation_p.R224*|PLAG1_uc010lyi.2_Nonsense_Mutation_p.R224*|PLAG1_uc010lyj.2_Nonsense_Mutation_p.R142*	NM_001114635	NP_001108107	Q6DJT9	PLAG1_HUMAN	pleiomorphic adenoma gene 1 isoform b	224	Decreased nuclear import with localization in the nucleus but also in the cytoplasm.|C2H2-type 7.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding		CTNNB1/PLAG1(60)|FGFR1_ENST00000447712/PLAG1(28)|CHCHD7/PLAG1(12)|LIFR_ENST00000263409/PLAG1(10)|HAS2/PLAG1(10)|COL1A2/PLAG1(3)|TCEA1_ENST00000521604/PLAG1(3)	salivary_gland(113)|soft_tissue(13)|lung(1)|central_nervous_system(1)|breast(1)	129		all_lung(136;0.0548)|Lung NSC(129;0.0718)|all_epithelial(80;0.125)	Epithelial(17;0.00179)|all cancers(17;0.0125)			TGATCCTTTCGCCCAAATCTC	0.478			T	TCEA1|LIFR|CTNNB1|CHCHD7	salivary adenoma								17	91					0	0	0.004007	0	0	
FAM110B	90362	broad.mit.edu	37	8	59058997	59058997	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:59058997G>A	uc003xtj.1	+	5	1088	c.208G>A	c.(208-210)GCC>ACC	p.A70T		NM_147189	NP_671722	Q8TC76	F110B_HUMAN	hypothetical protein LOC90362	70						microtubule organizing center|mitochondrion|nucleus				large_intestine(1)	1		all_epithelial(80;0.025)|all_lung(136;0.0274)|Lung NSC(129;0.0355)				GGTGATCAACGCCAAGCAGGA	0.682													8	19					0	0	0.004482	0	0	
CYP7A1	1581	broad.mit.edu	37	8	59409213	59409213	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:59409213C>T	uc003xtm.3	-	3	921	c.858G>A	c.(856-858)TCG>TCA	p.S286S		NM_000780	NP_000771	P22680	CP7A1_HUMAN	cytochrome P450, family 7, subfamily A,	286					bile acid biosynthetic process|cellular lipid metabolic process|cellular response to cholesterol|cellular response to glucose stimulus|cholesterol catabolic process|cholesterol homeostasis|regulation of bile acid biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	cholesterol 7-alpha-monooxygenase activity|electron carrier activity|heme binding			ovary(1)	1		all_lung(136;0.0271)|Lung NSC(129;0.0351)|all_epithelial(80;0.0554)				TGTTTGCTTGCGATGCCCAGA	0.423									Neonatal_Giant_Cell_Hepatitis				6	142					0	0	0.001168	0	0	
NSMAF	8439	broad.mit.edu	37	8	59555553	59555553	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:59555553G>A	uc003xtt.2	-	2	353	c.139C>T	c.(139-141)CAC>TAC	p.H47Y	NSMAF_uc011lee.1_Missense_Mutation_p.H78Y|NSMAF_uc003xtu.2_Missense_Mutation_p.H47Y	NM_003580	NP_003571	Q92636	FAN_HUMAN	neutral sphingomyelinase (N-SMase) activation	47					ceramide metabolic process	cytoplasm|soluble fraction	protein binding|receptor signaling protein activity			ovary(1)	1		all_lung(136;0.174)|Lung NSC(129;0.2)				CTTTCATGGTGACTGCCCTTG	0.388													20	68					0	0	0.010504	0	0	
TOX	9760	broad.mit.edu	37	8	59728227	59728227	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:59728227C>T	uc003xtw.1	-	7	1283	c.1062G>A	c.(1060-1062)TCG>TCA	p.S354S		NM_014729	NP_055544	O94900	TOX_HUMAN	thymus high mobility group box protein TOX	354						nucleus	DNA binding			kidney(2)|lung(1)|skin(1)	4		all_cancers(86;0.165)|Myeloproliferative disorder(644;0.00452)|all_lung(136;0.036)|Lung NSC(129;0.0464)|all_epithelial(80;0.0607)				CCGACGGCTTCGAATTGATCA	0.517													10	41					0	0	0.006214	0	0	
CHD7	55636	broad.mit.edu	37	8	61743054	61743054	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:61743054C>T	uc003xue.2	+	15	4173	c.3696C>T	c.(3694-3696)GGC>GGT	p.G1232G		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	1232					central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			TTTCCAAAGGCGGTGGTCAAG	0.418													6	126					0	0	0.001168	0	0	
CHD7	55636	broad.mit.edu	37	8	61777937	61777937	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:61777937C>T	uc003xue.2	+	38	8916	c.8439C>T	c.(8437-8439)GGC>GGT	p.G2813G		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	2813					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)			TTGGCTTGGGCGGGCTGTTGA	0.577													5	14					0	0	0.000602	0	0	
GGH	8836	broad.mit.edu	37	8	63948266	63948266	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:63948266G>A	uc003xuw.2	-	2	456	c.173C>T	c.(172-174)GCG>GTG	p.A58V		NM_003878	NP_003869	Q92820	GGH_HUMAN	gamma-glutamyl hydrolase precursor	58	Gamma-glutamyl hydrolase.				glutamine metabolic process	extracellular space|lysosome|melanosome	gamma-glutamyl-peptidase activity				0	Breast(64;0.0716)	all_cancers(86;0.189)|Lung NSC(129;0.0324)|all_lung(136;0.0593)|all_epithelial(80;0.131)			Folic Acid(DB00158)|L-Glutamic Acid(DB00142)	TACATAGGACGCAGCAATATA	0.308													6	137					0	0	0.003080	0	0	
YTHDF3	253943	broad.mit.edu	37	8	64099768	64099768	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:64099768C>A	uc003xuy.2	+	5	1515	c.1199C>A	c.(1198-1200)GCC>GAC	p.A400D	YTHDF3_uc010lys.2_Missense_Mutation_p.A344D|YTHDF3_uc003xuz.2_Missense_Mutation_p.A344D|YTHDF3_uc003xva.2_Missense_Mutation_p.A344D|YTHDF3_uc011len.1_Missense_Mutation_p.A344D	NM_152758	NP_689971	Q7Z739	YTHD3_HUMAN	YTH domain family, member 3	400											0	Breast(64;0.0716)	all_cancers(86;0.169)|Lung NSC(129;0.0324)|all_lung(136;0.0593)|all_epithelial(80;0.146)	BRCA - Breast invasive adenocarcinoma(89;0.161)			AAGCTAAAGGCCATAAACAAC	0.408													21	40					0.000295444	0.000308873	0.002299	1	0	
TRIM55	84675	broad.mit.edu	37	8	67061935	67061935	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:67061935G>A	uc003xvv.2	+	5	885	c.659G>A	c.(658-660)GGC>GAC	p.G220D	TRIM55_uc003xvu.2_Missense_Mutation_p.G220D|TRIM55_uc003xvw.2_Missense_Mutation_p.G220D|TRIM55_uc003xvx.2_Intron	NM_184085	NP_908973	Q9BYV6	TRI55_HUMAN	tripartite motif-containing 55 isoform 1	220	Potential.					cytoplasm|microtubule|nucleus	signal transducer activity|zinc ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5		Lung NSC(129;0.138)|all_lung(136;0.221)	Epithelial(68;0.0136)|all cancers(69;0.0582)|BRCA - Breast invasive adenocarcinoma(89;0.0628)|OV - Ovarian serous cystadenocarcinoma(28;0.0904)			TACCTGTATGGCATTTTGGAG	0.383													17	79					0	0	0.006122	0	0	
SGK3	23678	broad.mit.edu	37	8	67734620	67734620	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:67734620G>T	uc003xwr.2	+	6	642	c.343G>T	c.(343-345)GCA>TCA	p.A115S	SGK3_uc003xwp.2_Missense_Mutation_p.A109S|SGK3_uc003xwt.2_Missense_Mutation_p.A115S|SGK3_uc003xwu.2_Missense_Mutation_p.A115S	NM_001033578	NP_001028750	Q96BR1	SGK3_HUMAN	serum/glucocorticoid regulated kinase 3 isoform	115	PX.				cell communication|response to stress	cytoplasmic membrane-bounded vesicle|early endosome	ATP binding|phosphatidylinositol binding|protein serine/threonine kinase activity			ovary(1)|large_intestine(1)|lung(1)|breast(1)	4	Breast(64;0.186)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0046)|OV - Ovarian serous cystadenocarcinoma(28;0.0112)|all cancers(69;0.0141)|BRCA - Breast invasive adenocarcinoma(89;0.206)			AGATGTCAGAGCATTCCTTCA	0.328													33	197					1.32136e-16	1.44175e-16	0.008740	1	0	
ARFGEF1	10565	broad.mit.edu	37	8	68169965	68169965	+	Splice_Site	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:68169965A>G	uc003xxo.1	-	17	2916	c.2526_splice	c.e17+1	p.Q842_splice	ARFGEF1_uc003xxl.1_Splice_Site_p.Q296_splice	NM_006421	NP_006412	Q9Y6D6	BIG1_HUMAN	brefeldin A-inhibited guanine						exocytosis|regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity|myosin binding			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|kidney(1)	8	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0043)|OV - Ovarian serous cystadenocarcinoma(28;0.00578)|all cancers(69;0.0173)|BRCA - Breast invasive adenocarcinoma(89;0.206)			AAGAAAACATACCTGTGGACT	0.308													20	114					0	0	0.002299	0	0	
PREX2	80243	broad.mit.edu	37	8	69021701	69021701	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:69021701G>A	uc003xxv.1	+	25	3016	c.2989G>A	c.(2989-2991)GCC>ACC	p.A997T	PREX2_uc011lez.1_Missense_Mutation_p.A932T	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	997					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						AACCATGGCGGCCCCTTCAGG	0.458													18	46					0	0	0.007413	0	0	
SLCO5A1	81796	broad.mit.edu	37	8	70585449	70585449	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:70585449A>G	uc003xyl.2	-	10	2909	c.2202T>C	c.(2200-2202)TTT>TTC	p.F734F	SLCO5A1_uc010lzb.2_Silent_p.F679F|SLCO5A1_uc011lfa.1_RNA|SLCO5A1_uc003xyk.2_3'UTR	NM_030958	NP_112220	Q9H2Y9	SO5A1_HUMAN	solute carrier organic anion transporter family,	734	Extracellular (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|upper_aerodigestive_tract(1)	4	Breast(64;0.0654)		Epithelial(68;0.0141)|OV - Ovarian serous cystadenocarcinoma(28;0.0315)|all cancers(69;0.0594)			ACACAAAACGAAACGACGTCA	0.468													9	258					0	0	0.001855	0	0	
TRPA1	8989	broad.mit.edu	37	8	72968043	72968043	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:72968043A>G	uc003xza.2	-	11	1417	c.1242T>C	c.(1240-1242)TGT>TGC	p.C414C		NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	414	ANK 10.|Cytoplasmic (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	GTAGAGGAGTACACCCATCGT	0.363													11	40					0	0	0.000978	0	0	
TRPA1	8989	broad.mit.edu	37	8	72987551	72987551	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:72987551A>C	uc003xza.2	-	1	269	c.94T>G	c.(94-96)TTC>GTC	p.F32V		NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	32	Cytoplasmic (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	GATTCCTTGAAATCCTCCGTG	0.632													4	76					0	0	0.009096	0	0	
ZFHX4	79776	broad.mit.edu	37	8	77763549	77763549	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:77763549C>T	uc003yav.2	+	10	4644	c.4257C>T	c.(4255-4257)CCC>CCT	p.P1419P	ZFHX4_uc003yau.1_Silent_p.P1464P|ZFHX4_uc003yaw.1_Silent_p.P1419P	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1419						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CCTCCTTGCCCGTGAATGGAG	0.507										HNSCC(33;0.089)			11	44					0	0	0.001368	0	0	
ZFHX4	79776	broad.mit.edu	37	8	77763597	77763597	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:77763597C>A	uc003yav.2	+	10	4692	c.4305C>A	c.(4303-4305)GAC>GAA	p.D1435E	ZFHX4_uc003yau.1_Missense_Mutation_p.D1480E|ZFHX4_uc003yaw.1_Missense_Mutation_p.D1435E	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1435						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CCCAGGATGACCATGGCCTAG	0.507										HNSCC(33;0.089)			8	61					0.000274275	0.0002868	0.004482	1	0	
ZFHX4	79776	broad.mit.edu	37	8	77766285	77766285	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:77766285T>C	uc003yav.2	+	10	7380	c.6993T>C	c.(6991-6993)GCT>GCC	p.A2331A	ZFHX4_uc003yau.1_Silent_p.A2376A|ZFHX4_uc003yaw.1_Silent_p.A2331A	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2331						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CTAAAAACGCTGCTGCCCCTG	0.517										HNSCC(33;0.089)			12	137					0	0	0.002450	0	0	
ZFHX4	79776	broad.mit.edu	37	8	77766752	77766752	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:77766752C>T	uc003yav.2	+	10	7847	c.7460C>T	c.(7459-7461)CCC>CTC	p.P2487L	ZFHX4_uc003yau.1_Missense_Mutation_p.P2532L|ZFHX4_uc003yaw.1_Missense_Mutation_p.P2487L	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2487						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TTGGAAAGGCCCATGGACATG	0.527										HNSCC(33;0.089)			23	168					0	0	0.003330	0	0	
PKIA	5569	broad.mit.edu	37	8	79514053	79514053	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:79514053C>T	uc003yba.2	+	4	752	c.228C>T	c.(226-228)AGC>AGT	p.S76S	PKIA_uc003ybb.2_Silent_p.S76S|PKIA_uc010lzo.2_Silent_p.S76S	NM_006823	NP_006814	P61925	IPKA_HUMAN	cAMP-dependent protein kinase inhibitor alpha	76							cAMP-dependent protein kinase inhibitor activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						AATCTGAAAGCTAACACCCCA	0.428													4	65					0	0	0.009096	0	0	
ZNF704	619279	broad.mit.edu	37	8	81577073	81577073	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:81577073C>T	uc003yby.1	-	6	1136	c.904G>A	c.(904-906)GTG>ATG	p.V302M		NM_001033723	NP_001028895	Q6ZNC4	ZN704_HUMAN	zinc finger protein 704	302						intracellular	zinc ion binding				0	all_cancers(3;8.53e-08)|all_epithelial(4;4.59e-10)|Breast(3;2.56e-06)|Lung NSC(7;2.58e-06)|all_lung(9;9.4e-06)		BRCA - Breast invasive adenocarcinoma(6;0.00401)|Epithelial(68;0.00448)|all cancers(69;0.0277)			TCAGTGTGCACGAGGTAGAGG	0.537													15	63					0	0	0.006122	0	0	
FABP5	2171	broad.mit.edu	37	8	82195629	82195629	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:82195629C>T	uc003yca.1	+	2	156	c.108C>T	c.(106-108)GGC>GGT	p.G36G		NM_001444	NP_001435	Q01469	FABP5_HUMAN	fatty acid binding protein 5	36					epidermis development	cytoplasm	fatty acid binding|protein binding|transporter activity				0	Lung NSC(7;3.57e-05)|all_lung(9;0.00011)		Epithelial(68;0.102)			GAAAAATGGGCGCAATGGCCA	0.373													5	27					0	0	0.008291	0	0	
CA3	761	broad.mit.edu	37	8	86357402	86357402	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:86357402C>T	uc003ydj.2	+	5	545	c.462C>T	c.(460-462)GGC>GGT	p.G154G	CA3_uc011lfv.1_RNA	NM_005181	NP_005172	P07451	CAH3_HUMAN	carbonic anhydrase III	154					one-carbon metabolic process	cytoplasm	carbonate dehydratase activity|zinc ion binding				0						ATGAGAATGGCGAGTTCCAGA	0.343													10	55					0	0	0.000978	0	0	
WWP1	11059	broad.mit.edu	37	8	87393781	87393781	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:87393781G>A	uc003ydt.2	+	5	537	c.257G>A	c.(256-258)CGC>CAC	p.R86H	WWP1_uc010mai.2_5'UTR	NM_007013	NP_008944	Q9H0M0	WWP1_HUMAN	WW domain containing E3 ubiquitin protein ligase	86	C2.				central nervous system development|entry of virus into host cell|negative regulation of transcription, DNA-dependent|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|signal transduction	cytoplasm|nucleus|plasma membrane|ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			lung(1)|liver(1)	2						TGGAGCCATCGCACTTTAAAA	0.338													35	59					0	0	0.006230	0	0	
WWP1	11059	broad.mit.edu	37	8	87447904	87447904	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:87447904C>T	uc003ydt.2	+	16	2000	c.1720C>T	c.(1720-1722)CAG>TAG	p.Q574*	WWP1_uc010mai.2_Nonsense_Mutation_p.Q350*	NM_007013	NP_008944	Q9H0M0	WWP1_HUMAN	WW domain containing E3 ubiquitin protein ligase	574					central nervous system development|entry of virus into host cell|negative regulation of transcription, DNA-dependent|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|signal transduction	cytoplasm|nucleus|plasma membrane|ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			lung(1)|liver(1)	2						TGTGTCCCGGCAGACATTGTT	0.328													11	118					0	0	0.002450	0	0	
OSGIN2	734	broad.mit.edu	37	8	90937134	90937134	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:90937134C>T	uc003yeg.2	+	6	1238	c.892C>T	c.(892-894)CGT>TGT	p.R298C	OSGIN2_uc003yeh.2_Missense_Mutation_p.R342C	NM_004337	NP_004328	Q9Y236	OSGI2_HUMAN	oxidative stress induced growth inhibitor family	298					germ cell development|meiosis						0			BRCA - Breast invasive adenocarcinoma(11;0.0344)			AGGAAAGTTGCGTGGCAAAGT	0.438													23	140					0	0	0.007291	0	0	
RUNX1T1	862	broad.mit.edu	37	8	92998493	92998493	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:92998493G>A	uc003yfd.2	-	8	1222	c.1138C>T	c.(1138-1140)CGG>TGG	p.R380W	RUNX1T1_uc003yfc.1_Missense_Mutation_p.R353W|RUNX1T1_uc003yfe.1_Missense_Mutation_p.R343W|RUNX1T1_uc010mao.2_Missense_Mutation_p.R353W|RUNX1T1_uc011lgi.1_Missense_Mutation_p.R391W|RUNX1T1_uc010man.1_5'UTR|RUNX1T1_uc003yfb.1_Missense_Mutation_p.R343W	NM_175634	NP_783552	Q06455	MTG8_HUMAN	acute myelogenous leukemia 1 translocation 1	380	Important for oligomerization.				generation of precursor metabolites and energy	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(9)|large_intestine(3)|breast(2)|central_nervous_system(1)|pancreas(1)	16			BRCA - Breast invasive adenocarcinoma(11;0.0141)			TCTTGACACCGCCTTAGTACG	0.478													9	121					0	0	0.006214	0	0	
RUNX1T1	862	broad.mit.edu	37	8	93017525	93017525	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:93017525C>T	uc003yfd.2	-	5	643	c.559G>A	c.(559-561)GCC>ACC	p.A187T	RUNX1T1_uc003yfc.1_Missense_Mutation_p.A160T|RUNX1T1_uc003yfe.1_Missense_Mutation_p.A150T|RUNX1T1_uc010mao.2_Missense_Mutation_p.A160T|RUNX1T1_uc011lgi.1_Missense_Mutation_p.A198T|RUNX1T1_uc003yfb.1_Missense_Mutation_p.A150T|RUNX1T1_uc003yff.1_Missense_Mutation_p.A150T	NM_175634	NP_783552	Q06455	MTG8_HUMAN	acute myelogenous leukemia 1 translocation 1	187	TAFH.				generation of precursor metabolites and energy	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(9)|large_intestine(3)|breast(2)|central_nervous_system(1)|pancreas(1)	16			BRCA - Breast invasive adenocarcinoma(11;0.0141)			GGCAAGTTGGCCTGCAAGGGA	0.532													7	24					0	0	0.003080	0	0	
CDH17	1015	broad.mit.edu	37	8	95189851	95189851	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:95189851G>T	uc003ygh.2	-	4	374	c.249C>A	c.(247-249)GCC>GCA	p.A83A	CDH17_uc011lgo.1_Silent_p.A83A|CDH17_uc011lgp.1_Silent_p.A83A	NM_004063	NP_004054	Q12864	CAD17_HUMAN	cadherin 17 precursor	83	Extracellular (Potential).|Cadherin 1.					integral to membrane	calcium ion binding			ovary(5)|skin(1)	6	Breast(36;4.65e-06)		BRCA - Breast invasive adenocarcinoma(8;0.00691)			CCCTGTCCAAGGCTCTGTTGT	0.448													7	128					6.5536e-12	7.08706e-12	0.003080	1	0	
RAD54B	25788	broad.mit.edu	37	8	95423510	95423510	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:95423510T>C	uc003ygk.2	-	4	436	c.338A>G	c.(337-339)AAG>AGG	p.K113R	RAD54B_uc010may.1_5'UTR|RAD54B_uc003ygl.1_RNA	NM_012415	NP_036547	O95073	FSBP_HUMAN	RAD54 homolog B	Error:Variant_position_missing_in_O95073_after_alignment					double-strand break repair via homologous recombination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA translocase activity|protein binding			kidney(2)|lung(1)|skin(1)	4	Breast(36;4.5e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00217)			TTCTTGTTCCTTGGACACTGC	0.323								Direct_reversal_of_damage|Homologous_recombination					5	63					0	0	0.000602	0	0	
KIAA1429	25962	broad.mit.edu	37	8	95523709	95523709	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:95523709G>A	uc003ygo.1	-	13	3107	c.3094C>T	c.(3094-3096)CGT>TGT	p.R1032C	KIAA1429_uc003ygp.2_Missense_Mutation_p.R1032C|KIAA1429_uc010maz.1_RNA	NM_015496	NP_056311	Q69YN4	VIR_HUMAN	hypothetical protein LOC25962 isoform 1	1032					mRNA processing|RNA splicing	nucleus				ovary(1)|skin(1)	2	Breast(36;3.29e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00185)			GAAGGAACACGCATGTCCTTA	0.423													12	49					0	0	0.000978	0	0	
ESRP1	54845	broad.mit.edu	37	8	95680362	95680362	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:95680362G>A	uc003ygq.3	+	10	1300	c.1117G>A	c.(1117-1119)GCT>ACT	p.A373T	ESRP1_uc003ygr.3_Missense_Mutation_p.A373T|ESRP1_uc003ygs.3_Missense_Mutation_p.A373T|ESRP1_uc003ygt.3_Missense_Mutation_p.A373T|ESRP1_uc003ygu.3_Missense_Mutation_p.A373T|ESRP1_uc003ygv.2_Missense_Mutation_p.A213T|ESRP1_uc003ygw.2_Missense_Mutation_p.A213T	NM_017697	NP_060167	Q6NXG1	ESRP1_HUMAN	RNA binding motif protein 35A isoform 1	373	RRM 2.				mRNA processing|regulation of RNA splicing|RNA splicing	nucleus|plasma membrane	mRNA binding|nucleotide binding		ESRP1/RAF1(4)	prostate(4)	4						AACAGGGGACGCTTTTGTCCT	0.483													11	80					0	0	0.008291	0	0	
INTS8	55656	broad.mit.edu	37	8	95886789	95886789	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:95886789C>T	uc003yhb.2	+	23	2773	c.2647C>T	c.(2647-2649)CGA>TGA	p.R883*	INTS8_uc011lgq.1_RNA|INTS8_uc011lgr.1_RNA|INTS8_uc010mba.2_Intron	NM_017864	NP_060334	Q75QN2	INT8_HUMAN	integrator complex subunit 8	883					snRNA processing	integrator complex	protein binding				0	Breast(36;1.05e-06)					GGTAATAAAACGAATGATAAA	0.184													7	37					0	0	0.003080	0	0	
PLEKHF2	79666	broad.mit.edu	37	8	96166313	96166313	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:96166313G>A	uc003yhn.1	+	2	288	c.41G>A	c.(40-42)CGT>CAT	p.R14H		NM_024613	NP_078889	Q9H8W4	PKHF2_HUMAN	phafin 2	14						transport vesicle	metal ion binding|protein binding			ovary(2)	2	Breast(36;3.18e-05)					AATACTAGACGTATAAGTATA	0.348													27	84					0	0	0.002096	0	0	
GDF6	392255	broad.mit.edu	37	8	97157065	97157065	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:97157065T>C	uc003yhp.2	-	2	1194	c.1094A>G	c.(1093-1095)GAG>GGG	p.E365G		NM_001001557	NP_001001557	Q6KF10	GDF6_HUMAN	growth differentiation factor 6 precursor	365					activin receptor signaling pathway|BMP signaling pathway|growth|pathway-restricted SMAD protein phosphorylation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(1)|breast(1)|pancreas(1)	3	Breast(36;2.67e-05)					CCAGCCCAGCTCCTTGAAGTT	0.602													3	31					0	0	0.004672	0	0	
GDF6	392255	broad.mit.edu	37	8	97157131	97157131	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:97157131C>T	uc003yhp.2	-	2	1128	c.1028G>A	c.(1027-1029)GGC>GAC	p.G343D		NM_001001557	NP_001001557	Q6KF10	GDF6_HUMAN	growth differentiation factor 6 precursor	343					activin receptor signaling pathway|BMP signaling pathway|growth|pathway-restricted SMAD protein phosphorylation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(1)|breast(1)|pancreas(1)	3	Breast(36;2.67e-05)					GTGCCGCTTGCCATGGCGACT	0.458													3	12					0	0	0.004672	0	0	
LAPTM4B	55353	broad.mit.edu	37	8	98827574	98827574	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:98827574C>T	uc003yia.2	+	3	659	c.503C>T	c.(502-504)GCG>GTG	p.A168V	LAPTM4B_uc010mbg.2_Intron	NM_018407	NP_060877	Q86VI4	LAP4B_HUMAN	lysosomal associated transmembrane protein 4	221	Helical; (Potential).				transport	endomembrane system|integral to membrane	protein binding			skin(1)	1	Breast(36;1.59e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.149)			ATTGCCATTGCGATTTCTCTT	0.413													9	40					0	0	0.000978	0	0	
POP1	10940	broad.mit.edu	37	8	99148735	99148735	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:99148735C>T	uc003yij.3	+	8	1137	c.1037C>T	c.(1036-1038)GCG>GTG	p.A346V	POP1_uc011lgv.1_Missense_Mutation_p.A346V|POP1_uc003yik.2_Missense_Mutation_p.A346V	NM_001145860	NP_001139332	Q99575	POP1_HUMAN	processing of precursor 1	346					tRNA 5'-leader removal|tRNA catabolic process	nucleolar ribonuclease P complex|ribonuclease MRP complex	identical protein binding|ribonuclease MRP activity|ribonuclease P activity			ovary(1)|breast(1)	2	Breast(36;1.78e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.145)			ATAAAAGCAGCGTGCCAGTGT	0.353													6	169					0	0	0.003080	0	0	
VPS13B	157680	broad.mit.edu	37	8	100866085	100866085	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:100866085A>G	uc003yiv.2	+	56	10654	c.10543A>G	c.(10543-10545)ATC>GTC	p.I3515V	VPS13B_uc003yiw.2_Missense_Mutation_p.I3490V	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	3515					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			AGGCAAGAGCATCCTCTGTGA	0.358													33	133					0	0	0.004878	0	0	
RGS22	26166	broad.mit.edu	37	8	101018332	101018332	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:101018332C>T	uc003yjb.1	-	16	2562	c.2367G>A	c.(2365-2367)GAG>GAA	p.E789E	RGS22_uc003yja.1_Silent_p.E608E|RGS22_uc003yjc.1_Silent_p.E777E|RGS22_uc011lgz.1_RNA	NM_015668	NP_056483	Q8NE09	RGS22_HUMAN	regulator of G-protein signaling 22	789					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7			Epithelial(11;6.71e-08)|all cancers(13;4.19e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000469)|STAD - Stomach adenocarcinoma(118;0.169)			CTTCCACCAGCTCCACCTAAA	0.373													20	33					0	0	0.008871	0	0	
FBXO43	286151	broad.mit.edu	37	8	101153265	101153265	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:101153265T>C	uc003yjd.2	-	2	1930	c.1217A>G	c.(1216-1218)GAC>GGC	p.D406G	FBXO43_uc003yje.2_Missense_Mutation_p.D372G|FBXO43_uc010mbp.1_Missense_Mutation_p.D406G	NM_001029860	NP_001025031	Q4G163	FBX43_HUMAN	F-box protein 43 isoform b	406					meiosis		zinc ion binding			kidney(1)|skin(1)	2	all_cancers(14;0.000139)|all_epithelial(15;2.84e-07)|Lung NSC(17;0.000274)|all_lung(17;0.000798)		Epithelial(11;1.17e-09)|all cancers(13;1.34e-07)|OV - Ovarian serous cystadenocarcinoma(57;3.82e-05)|STAD - Stomach adenocarcinoma(118;0.0957)			TTTTTCAGAGTCAGGGTGGAC	0.468													12	91					0	0	0.000978	0	0	
POLR2K	5440	broad.mit.edu	37	8	101165527	101165527	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:101165527G>A	uc003yjf.2	+	4	268	c.160G>A	c.(160-162)GTT>ATT	p.V54I		NM_005034	NP_005025	P53803	RPAB4_HUMAN	DNA directed RNA polymerase II polypeptide K	54					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|regulation of transcription from RNA polymerase I promoter|termination of RNA polymerase I transcription|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription elongation from RNA polymerase III promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|zinc ion binding				0	all_cancers(14;0.000139)|all_epithelial(15;2.84e-07)|Lung NSC(17;0.000274)|all_lung(17;0.000798)		Epithelial(11;1.59e-09)|all cancers(13;1.74e-07)|OV - Ovarian serous cystadenocarcinoma(57;3.82e-05)|STAD - Stomach adenocarcinoma(118;0.0957)			TACAGTGGTCGTTTTTGATGC	0.353													6	117					0	0	0.003080	0	0	
SPAG1	6674	broad.mit.edu	37	8	101232554	101232554	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:101232554C>T	uc003yjh.1	+	13	1669	c.1583C>T	c.(1582-1584)GCG>GTG	p.A528V	SPAG1_uc003yji.1_Missense_Mutation_p.A528V	NM_172218	NP_757367	Q07617	SPAG1_HUMAN	sperm associated antigen 1	528	TPR 6.				single fertilization	cytoplasm	GTP binding|hydrolase activity			ovary(2)|central_nervous_system(1)	3	all_cancers(14;2.35e-05)|all_epithelial(15;5.2e-08)|Lung NSC(17;0.000283)|all_lung(17;0.000823)	Breast(495;0.195)	Epithelial(11;1.12e-09)|all cancers(13;1.26e-07)|OV - Ovarian serous cystadenocarcinoma(57;4.37e-05)|STAD - Stomach adenocarcinoma(118;0.0525)	KIRC - Kidney renal clear cell carcinoma(542;0.00178)|READ - Rectum adenocarcinoma(644;0.236)		CTGAGGCGGGCGATGGCCTAT	0.403													21	90					0	0	0.005443	0	0	
RNF19A	25897	broad.mit.edu	37	8	101271043	101271043	+	Missense_Mutation	SNP	C	T	T	rs34606154		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:101271043C>T	uc003yjj.1	-	11	2575	c.2258G>A	c.(2257-2259)CGC>CAC	p.R753H	RNF19A_uc003yjk.1_Missense_Mutation_p.R753H	NM_015435	NP_056250	Q9NV58	RN19A_HUMAN	ring finger protein 19	753	Interaction with CASR.				microtubule cytoskeleton organization|protein modification process	centrosome|integral to membrane	ligase activity|transcription factor binding|zinc ion binding			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(14;3.5e-05)|all_epithelial(15;8.91e-08)|Lung NSC(17;0.000615)|all_lung(17;0.00166)		Epithelial(11;3.06e-11)|all cancers(13;5.78e-09)|OV - Ovarian serous cystadenocarcinoma(57;2.24e-05)|STAD - Stomach adenocarcinoma(118;0.0525)			AGTAGCAAAGCGGGTGTGATA	0.408													6	109					0	0	0.001168	0	0	
RNF19A	25897	broad.mit.edu	37	8	101277003	101277003	+	Missense_Mutation	SNP	C	T	T	rs138968684	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:101277003C>T	uc003yjj.1	-	7	1519	c.1202G>A	c.(1201-1203)CGC>CAC	p.R401H	RNF19A_uc003yjk.1_Missense_Mutation_p.R401H	NM_015435	NP_056250	Q9NV58	RN19A_HUMAN	ring finger protein 19	401					microtubule cytoskeleton organization|protein modification process	centrosome|integral to membrane	ligase activity|transcription factor binding|zinc ion binding			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(14;3.5e-05)|all_epithelial(15;8.91e-08)|Lung NSC(17;0.000615)|all_lung(17;0.00166)		Epithelial(11;3.06e-11)|all cancers(13;5.78e-09)|OV - Ovarian serous cystadenocarcinoma(57;2.24e-05)|STAD - Stomach adenocarcinoma(118;0.0525)			GCCTTCATAGCGATTGTGAAT	0.373													24	111					0	0	0.005443	0	0	
NCALD	83988	broad.mit.edu	37	8	102731525	102731525	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:102731525G>A	uc003yke.2	-	2	702	c.333C>T	c.(331-333)GAC>GAT	p.D111D	NCALD_uc003ykf.2_Silent_p.D111D|NCALD_uc003ykg.2_Silent_p.D111D|NCALD_uc003ykh.2_Silent_p.D111D|NCALD_uc003yki.2_Silent_p.D111D|NCALD_uc003ykj.2_Silent_p.D111D|NCALD_uc003ykk.2_Silent_p.D111D|NCALD_uc003ykl.2_Silent_p.D111D	NM_032041	NP_114430	P61601	NCALD_HUMAN	neurocalcin delta	111	EF-hand 3.|2 (Potential).				synaptic transmission|vesicle-mediated transport	clathrin coat of trans-Golgi network vesicle|cytosol	actin binding|calcium ion binding|clathrin binding|tubulin binding				0	all_cancers(14;8.94e-08)|all_epithelial(15;7.03e-10)|Lung NSC(17;1.36e-05)|all_lung(17;2.7e-05)		all cancers(13;1.09e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000699)			AGCCATTTCCGTCCAGGTCGT	0.463													23	117					0	0	0.002780	0	0	
NCALD	83988	broad.mit.edu	37	8	102731596	102731596	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:102731596C>T	uc003yke.2	-	2	631	c.262G>A	c.(262-264)GCC>ACC	p.A88T	NCALD_uc003ykf.2_Missense_Mutation_p.A88T|NCALD_uc003ykg.2_Missense_Mutation_p.A88T|NCALD_uc003ykh.2_Missense_Mutation_p.A88T|NCALD_uc003yki.2_Missense_Mutation_p.A88T|NCALD_uc003ykj.2_Missense_Mutation_p.A88T|NCALD_uc003ykk.2_Missense_Mutation_p.A88T|NCALD_uc003ykl.2_Missense_Mutation_p.A88T	NM_032041	NP_114430	P61601	NCALD_HUMAN	neurocalcin delta	88	EF-hand 2.				synaptic transmission|vesicle-mediated transport	clathrin coat of trans-Golgi network vesicle|cytosol	actin binding|calcium ion binding|clathrin binding|tubulin binding				0	all_cancers(14;8.94e-08)|all_epithelial(15;7.03e-10)|Lung NSC(17;1.36e-05)|all_lung(17;2.7e-05)		all cancers(13;1.09e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000699)			ACACTCAAGGCGATGATGAAT	0.478													11	193					0	0	0.001368	0	0	
FZD6	8323	broad.mit.edu	37	8	104312465	104312465	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:104312465A>G	uc003ylh.2	+	2	414	c.130A>G	c.(130-132)AAT>GAT	p.N44D	FZD6_uc003yli.2_Missense_Mutation_p.N44D|FZD6_uc003ylj.2_Missense_Mutation_p.N44D|FZD6_uc011lhn.1_Missense_Mutation_p.N10D|FZD6_uc011lho.1_5'UTR|FZD6_uc011lhp.1_5'UTR	NM_003506	NP_003497	O60353	FZD6_HUMAN	frizzled 6 isoform a precursor	44	FZ.|Extracellular (Potential).				angiogenesis|axonogenesis|cell proliferation in midbrain|establishment of planar polarity|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|inner ear morphogenesis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of sequence-specific DNA binding transcription factor activity|neural tube closure|non-canonical Wnt receptor signaling pathway	apical part of cell|apicolateral plasma membrane|cytoplasm|integral to plasma membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			central_nervous_system(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(57;2.86e-05)|STAD - Stomach adenocarcinoma(118;0.197)			GTTTTTCCCTAATCTGATGGG	0.418													6	133					0	0	0.003080	0	0	
FZD6	8323	broad.mit.edu	37	8	104340603	104340603	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:104340603C>T	uc003ylh.2	+	5	1784	c.1500C>T	c.(1498-1500)TGC>TGT	p.C500C	FZD6_uc003yli.2_Silent_p.C500C|FZD6_uc003ylj.2_Silent_p.C500C|FZD6_uc011lhn.1_Silent_p.C466C|FZD6_uc011lho.1_Silent_p.C195C|FZD6_uc011lhp.1_Silent_p.C445C	NM_003506	NP_003497	O60353	FZD6_HUMAN	frizzled 6 isoform a precursor	500	Lys-Thr-X-X-X-Trp motif, mediates interaction with the PDZ domain of Dvl family members (By similarity).|Cytoplasmic (Potential).				angiogenesis|axonogenesis|cell proliferation in midbrain|establishment of planar polarity|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|inner ear morphogenesis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of sequence-specific DNA binding transcription factor activity|neural tube closure|non-canonical Wnt receptor signaling pathway	apical part of cell|apicolateral plasma membrane|cytoplasm|integral to plasma membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			central_nervous_system(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(57;2.86e-05)|STAD - Stomach adenocarcinoma(118;0.197)			AAAAGACATGCACAGAATGGG	0.353													11	66					0	0	0.008291	0	0	
CTHRC1	115908	broad.mit.edu	37	8	104390323	104390323	+	Silent	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:104390323A>G	uc003ylk.2	+	3	540	c.441A>G	c.(439-441)CTA>CTG	p.L147L		NM_138455	NP_612464	Q96CG8	CTHR1_HUMAN	collagen triple helix repeat containing 1	147						collagen				ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(57;2.79e-06)|STAD - Stomach adenocarcinoma(118;0.197)			CACTTCGGCTAAAATGCAGAA	0.383													19	104					0	0	0.002299	0	0	
LRP12	29967	broad.mit.edu	37	8	105509882	105509882	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:105509882G>A	uc003yma.2	-	5	993	c.898C>T	c.(898-900)CGC>TGC	p.R300C	LRP12_uc003ymb.2_Missense_Mutation_p.R281C|LRP12_uc003ylz.2_5'Flank	NM_013437	NP_038465	Q9Y561	LRP12_HUMAN	low density lipoprotein-related protein 12	300	Extracellular (Potential).|CUB 2.				endocytosis|regulation of growth	coated pit|integral to plasma membrane	low-density lipoprotein receptor activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(57;1.21e-06)|STAD - Stomach adenocarcinoma(118;0.229)			TCAGTGAAGCGTAAAATGACT	0.378													11	62					0	0	0.000978	0	0	
ANGPT1	284	broad.mit.edu	37	8	108264151	108264151	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:108264151G>A	uc003ymn.2	-	9	1897	c.1429C>T	c.(1429-1431)CAC>TAC	p.H477Y	ANGPT1_uc011lhv.1_Missense_Mutation_p.H277Y|ANGPT1_uc003ymo.2_Missense_Mutation_p.H476Y	NM_001146	NP_001137	Q15389	ANGP1_HUMAN	angiopoietin 1 precursor	477	Fibrinogen C-terminal.				activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|blood coagulation|cell differentiation|heparin biosynthetic process|leukocyte migration|negative regulation of cell adhesion|negative regulation of endothelial cell apoptosis|negative regulation of vascular permeability|positive chemotaxis|positive regulation of blood vessel endothelial cell migration|positive regulation of ERK1 and ERK2 cascade|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of protein ubiquitination|positive regulation of receptor internalization|protein localization at cell surface|regulation of satellite cell proliferation|sprouting angiogenesis|Tie receptor signaling pathway	extracellular space|membrane raft|microvillus|plasma membrane	receptor tyrosine kinase binding			ovary(3)|skin(3)|upper_aerodigestive_tract(1)	7	Breast(1;5.06e-08)		OV - Ovarian serous cystadenocarcinoma(57;5.53e-09)			TTGAAGTAGTGCCACTTTATC	0.418													30	149					0	0	0.002836	0	0	
ANGPT1	284	broad.mit.edu	37	8	108296925	108296925	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:108296925T>C	uc003ymn.2	-	7	1658	c.1190A>G	c.(1189-1191)GAA>GGA	p.E397G	ANGPT1_uc011lhv.1_Missense_Mutation_p.E197G|ANGPT1_uc003ymo.2_Missense_Mutation_p.E396G|ANGPT1_uc003ymp.3_Missense_Mutation_p.E196G	NM_001146	NP_001137	Q15389	ANGP1_HUMAN	angiopoietin 1 precursor	397	Fibrinogen C-terminal.				activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|blood coagulation|cell differentiation|heparin biosynthetic process|leukocyte migration|negative regulation of cell adhesion|negative regulation of endothelial cell apoptosis|negative regulation of vascular permeability|positive chemotaxis|positive regulation of blood vessel endothelial cell migration|positive regulation of ERK1 and ERK2 cascade|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of protein ubiquitination|positive regulation of receptor internalization|protein localization at cell surface|regulation of satellite cell proliferation|sprouting angiogenesis|Tie receptor signaling pathway	extracellular space|membrane raft|microvillus|plasma membrane	receptor tyrosine kinase binding			ovary(3)|skin(3)|upper_aerodigestive_tract(1)	7	Breast(1;5.06e-08)		OV - Ovarian serous cystadenocarcinoma(57;5.53e-09)			GTTTTGCTTTTCATTTCCTAT	0.388													8	67					0	0	0.004482	0	0	
CSMD3	114788	broad.mit.edu	37	8	113293565	113293565	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:113293565T>A	uc003ynu.2	-	59	9505	c.9346A>T	c.(9346-9348)AAC>TAC	p.N3116Y	CSMD3_uc003yns.2_Missense_Mutation_p.N2318Y|CSMD3_uc003ynt.2_Missense_Mutation_p.N3076Y|CSMD3_uc011lhx.1_Missense_Mutation_p.N2947Y	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3116	Extracellular (Potential).|Sushi 23.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						GTTCCTGGGTTACCACACTGC	0.368										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			11	54					0	0	0.001368	0	0	
CSMD3	114788	broad.mit.edu	37	8	113966981	113966981	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:113966981G>A	uc003ynu.2	-	8	1511	c.1352C>T	c.(1351-1353)GCC>GTC	p.A451V	CSMD3_uc003ynt.2_Missense_Mutation_p.A411V|CSMD3_uc011lhx.1_Missense_Mutation_p.A347V	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	451	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						AAAATCTATGGCCTTTTTCAC	0.289										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			7	18					0	0	0.001984	0	0	
TRPS1	7227	broad.mit.edu	37	8	116632282	116632282	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:116632282C>T	uc003ynz.2	-	2	463	c.4G>A	c.(4-6)GTC>ATC	p.V2I	TRPS1_uc011lhy.1_Missense_Mutation_p.V6I|TRPS1_uc003yny.2_Missense_Mutation_p.V15I|TRPS1_uc010mcy.2_Missense_Mutation_p.V2I	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	2					negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			TTTTTCCGGACCATATCTGCA	0.408									Langer-Giedion_syndrome				16	27					0	0	0.007413	0	0	
DEPDC6	64798	broad.mit.edu	37	8	121013832	121013832	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:121013832C>T	uc003yow.3	+	5	860	c.673C>T	c.(673-675)CGA>TGA	p.R225*	DEPDC6_uc011lid.1_Nonsense_Mutation_p.R124*	NM_022783	NP_073620	Q8TB45	DPTOR_HUMAN	DEP domain containing 6	225	Poly-Arg.				intracellular signal transduction|negative regulation of cell size|negative regulation of protein kinase activity|negative regulation of TOR signaling cascade|regulation of apoptosis	intracellular	protein binding				0	Lung NSC(37;9.35e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			CCGGCGGAGGCGAAGACTGAT	0.493													11	44					0	0	0.000978	0	0	
COL14A1	7373	broad.mit.edu	37	8	121228677	121228677	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:121228677T>C	uc003yox.2	+	14	1950	c.1685T>C	c.(1684-1686)ATC>ACC	p.I562T	COL14A1_uc003yoy.2_Missense_Mutation_p.I240T|COL14A1_uc010mde.1_Missense_Mutation_p.I240T	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor	562	Fibronectin type-III 4.				cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)			TCAAGACAGATCAATGGTTAT	0.388													7	106					0	0	0.003080	0	0	
COL14A1	7373	broad.mit.edu	37	8	121259909	121259909	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:121259909G>A	uc003yox.2	+	21	2802	c.2537G>A	c.(2536-2538)CGC>CAC	p.R846H	COL14A1_uc003yoy.2_Missense_Mutation_p.R524H	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor	846	Fibronectin type-III 7.				cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)			AACCGGTTGCGCATTACGTGG	0.458													16	47					0	0	0.006122	0	0	
HAS2	3037	broad.mit.edu	37	8	122641065	122641065	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:122641065C>T	uc003yph.2	-	2	1054	c.516G>A	c.(514-516)ACG>ACA	p.T172T		NM_005328	NP_005319	Q92819	HAS2_HUMAN	hyaluronan synthase 2	172	Cytoplasmic (Potential).					integral to plasma membrane	hyaluronan synthase activity		HAS2/PLAG1(10)	soft_tissue(10)|ovary(5)	15	Lung NSC(37;3.12e-08)|Ovarian(258;0.0254)|Hepatocellular(40;0.0997)|all_neural(195;0.142)		STAD - Stomach adenocarcinoma(47;0.00503)			AGACCAATTGCGTTACGTGTT	0.458													53	292					0	0	0.003610	0	0	
ZHX2	22882	broad.mit.edu	37	8	123964440	123964440	+	Silent	SNP	C	T	T	rs142739771		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:123964440C>T	uc003ypk.1	+	3	1257	c.690C>T	c.(688-690)GGC>GGT	p.G230G		NM_014943	NP_055758	Q9Y6X8	ZHX2_HUMAN	zinc fingers and homeoboxes 2	230	Required for homodimerization.					cytoplasm|nucleus|plasma membrane	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2	Lung NSC(37;2e-09)|Ovarian(258;0.0205)|Hepatocellular(40;0.105)		STAD - Stomach adenocarcinoma(47;0.00527)			CGAGACTCGGCGGGGTGGAGC	0.577													7	85					0	0	0.003080	0	0	
WDYHV1	55093	broad.mit.edu	37	8	124453601	124453601	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:124453601C>T	uc003yqn.1	+	6	689	c.564C>T	c.(562-564)GGC>GGT	p.G188G	WDYHV1_uc011lij.1_Silent_p.G128G|WDYHV1_uc003yqo.1_RNA	NM_018024	NP_060494	Q96HA8	NTAQ1_HUMAN	WDYHV motif containing 1	188					protein modification process	cytosol|nucleus	protein binding|protein N-terminal glutamine amidohydrolase activity			ovary(1)|skin(1)	2						TAGGATGGGGCGCCGTCTACA	0.383													6	19					0	0	0.001984	0	0	
NDUFB9	4715	broad.mit.edu	37	8	125555399	125555399	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:125555399C>T	uc003yrg.3	+	2	258	c.173C>T	c.(172-174)GCG>GTG	p.A58V	NDUFB9_uc011lim.1_Missense_Mutation_p.A58V	NM_005005	NP_004996	Q9Y6M9	NDUB9_HUMAN	NADH dehydrogenase (ubiquinone) 1 beta	58					mitochondrial electron transport, NADH to ubiquinone|sensory perception of sound|transport	mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity			ovary(1)|skin(1)	2	Ovarian(258;0.00438)|all_neural(195;0.0779)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)		NADH(DB00157)	AAGGATATGGCGAAGGCCACC	0.463													10	70					0	0	0.006214	0	0	
MTSS1	9788	broad.mit.edu	37	8	125565387	125565387	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:125565387G>A	uc003yrk.2	-	14	2648	c.2114C>T	c.(2113-2115)GCC>GTC	p.A705V	NDUFB9_uc011lim.1_Intron|MTSS1_uc003yrh.2_Missense_Mutation_p.A354V|MTSS1_uc011lin.1_Missense_Mutation_p.A479V|MTSS1_uc011lio.1_Missense_Mutation_p.A595V|MTSS1_uc003yri.2_Missense_Mutation_p.A423V|MTSS1_uc003yrj.2_Missense_Mutation_p.A680V|MTSS1_uc003yrl.2_Missense_Mutation_p.A709V	NM_014751	NP_055566	O43312	MTSS1_HUMAN	metastasis suppressor 1	705	Pro-rich.				actin cytoskeleton organization|cell adhesion|cellular component movement|filopodium assembly|transmembrane receptor protein tyrosine kinase signaling pathway	actin cytoskeleton|endocytic vesicle|ruffle	actin monomer binding|cytoskeletal adaptor activity|receptor binding|SH3 domain binding			ovary(1)	1	Ovarian(258;0.00438)|all_neural(195;0.00459)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			GGAGACAGTGGCACTTGGGGG	0.582													17	210					0	0	0.004007	0	0	
MTSS1	9788	broad.mit.edu	37	8	125568594	125568594	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:125568594C>T	uc003yrk.2	-	12	1817	c.1283G>A	c.(1282-1284)CGC>CAC	p.R428H	NDUFB9_uc011lim.1_Intron|MTSS1_uc003yrh.2_5'UTR|MTSS1_uc011lin.1_Missense_Mutation_p.R202H|MTSS1_uc011lio.1_Missense_Mutation_p.R318H|MTSS1_uc003yri.2_Missense_Mutation_p.R146H|MTSS1_uc003yrj.2_Missense_Mutation_p.R403H|MTSS1_uc003yrl.2_Missense_Mutation_p.R432H	NM_014751	NP_055566	O43312	MTSS1_HUMAN	metastasis suppressor 1	428					actin cytoskeleton organization|cell adhesion|cellular component movement|filopodium assembly|transmembrane receptor protein tyrosine kinase signaling pathway	actin cytoskeleton|endocytic vesicle|ruffle	actin monomer binding|cytoskeletal adaptor activity|receptor binding|SH3 domain binding			ovary(1)	1	Ovarian(258;0.00438)|all_neural(195;0.00459)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			CTCTTTGCGGCGCTGCAGGGT	0.647													3	10					0	0	0.004672	0	0	
Unknown	0	broad.mit.edu	37	8	125934342	125934342	+	RNA	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:125934342C>T	uc003yrn.1	-	1		c.14G>A								DQ572100																		CCCATGGATACTGACGTTTTG	0.398													6	11					0	0	0.001168	0	0	
SQLE	6713	broad.mit.edu	37	8	126021249	126021249	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:126021249C>T	uc011liq.1	+	5	1785	c.859C>T	c.(859-861)CTT>TTT	p.L287F		NM_003129	NP_003120	Q14534	ERG1_HUMAN	squalene epoxidase	287					cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome	flavin adenine dinucleotide binding|squalene monooxygenase activity			ovary(1)|breast(1)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)		Butenafine(DB01091)|Naftifine(DB00735)|Terbinafine(DB00857)	TGCAGATGGGCTTTTCTCCAA	0.388													5	24					0	0	0.001984	0	0	
KIAA0196	9897	broad.mit.edu	37	8	126040911	126040911	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:126040911G>A	uc003yrt.2	-	28	3703	c.3374C>T	c.(3373-3375)GCC>GTC	p.A1125V	KIAA0196_uc011lir.1_Missense_Mutation_p.A977V|KIAA0196_uc003yru.1_Missense_Mutation_p.P648S	NM_014846	NP_055661	Q12768	STRUM_HUMAN	strumpellin	1125					cell death	WASH complex				ovary(2)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)			GAACAGAAGGGCACCCACAAC	0.398													4	75					0	0	0.001168	0	0	
KIAA0196	9897	broad.mit.edu	37	8	126056869	126056869	+	Missense_Mutation	SNP	C	T	T	rs142078144	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:126056869C>T	uc003yrt.2	-	21	2905	c.2576G>A	c.(2575-2577)CGC>CAC	p.R859H	KIAA0196_uc011lir.1_Missense_Mutation_p.R711H|KIAA0196_uc003yru.1_Missense_Mutation_p.R433H	NM_014846	NP_055661	Q12768	STRUM_HUMAN	strumpellin	859					cell death	WASH complex				ovary(2)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)			TGAGAAGAGGCGGCTGCTGGT	0.428													8	161					0	0	0.006214	0	0	
MIR1206	100302170	broad.mit.edu	37	8	129021199	129021199	+	RNA	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:129021199G>A	hsa-mir-1206|MI0006339	+			c.56G>A			PVT1_uc010mdq.2_Intron|PVT1_uc003ysl.2_Intron																	0						GCTAGTGAACGCTGCCAAATT	0.393													16	68					0	0	0.006122	0	0	
ASAP1	50807	broad.mit.edu	37	8	131070228	131070228	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:131070228A>G	uc003yta.1	-	28	3315	c.3287T>C	c.(3286-3288)GTC>GCC	p.V1096A	ASAP1_uc003ysz.1_Missense_Mutation_p.V907A|ASAP1_uc011liw.1_Missense_Mutation_p.V1089A	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	1096	SH3.				cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4						TTCCCCTGTGACGATAATCAC	0.498													7	113					0	0	0.003080	0	0	
ASAP1	50807	broad.mit.edu	37	8	131092151	131092151	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:131092151G>A	uc003yta.1	-	25	2667	c.2639C>T	c.(2638-2640)TCG>TTG	p.S880L	ASAP1_uc003ysz.1_Missense_Mutation_p.S691L|ASAP1_uc011liw.1_Missense_Mutation_p.S873L	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	880	Pro-rich.				cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4						GGCTTACCTCGACTGCTGGGA	0.453													60	222					0	0	0.003610	0	0	
ASAP1	50807	broad.mit.edu	37	8	131104379	131104379	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:131104379G>A	uc003yta.1	-	24	2440	c.2412C>T	c.(2410-2412)GGC>GGT	p.G804G	ASAP1_uc003ysz.1_Silent_p.G615G|ASAP1_uc011liw.1_Silent_p.G797G	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	804	Pro-rich.				cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4						TTGAAGGTGGGCCAGTTGGAC	0.517													18	48					0	0	0.008871	0	0	
EFR3A	23167	broad.mit.edu	37	8	133014887	133014887	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:133014887G>A	uc003yte.2	+	21	2445	c.2244G>A	c.(2242-2244)AGG>AGA	p.R748R		NM_015137	NP_055952	Q14156	EFR3A_HUMAN	EFR3 homolog A	748						plasma membrane	binding			ovary(3)|breast(1)|central_nervous_system(1)	5	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)|LUAD - Lung adenocarcinoma(14;0.102)			AGGAAAAGAGGCGTCTTGTGA	0.378													12	80					0	0	0.002450	0	0	
PHF20L1	51105	broad.mit.edu	37	8	133806768	133806768	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:133806768C>T	uc003ytt.2	+	3	521	c.196C>T	c.(196-198)CGA>TGA	p.R66*	PHF20L1_uc003ytr.2_Nonsense_Mutation_p.R66*|PHF20L1_uc010mdv.2_Nonsense_Mutation_p.R66*|PHF20L1_uc003yts.2_Nonsense_Mutation_p.R66*|PHF20L1_uc011lja.1_Nonsense_Mutation_p.R66*|PHF20L1_uc003ytu.1_RNA|PHF20L1_uc003ytq.2_Nonsense_Mutation_p.R66*	NM_016018	NP_057102	A8MW92	P20L1_HUMAN	PHD finger protein 20-like 1 isoform 1	66	Tudor 1.						nucleic acid binding|zinc ion binding			ovary(2)	2	all_neural(3;2.72e-06)|Medulloblastoma(3;7.08e-05)|Ovarian(258;0.00438)|Esophageal squamous(12;0.00507)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;4.46e-05)			CAATAGATTGCGACCCCTTGA	0.403													9	141					0	0	0.006214	0	0	
PHF20L1	51105	broad.mit.edu	37	8	133829268	133829268	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:133829268G>A	uc003ytt.2	+	11	1644	c.1319G>A	c.(1318-1320)GGG>GAG	p.G440E	PHF20L1_uc003yts.2_Missense_Mutation_p.G440E|PHF20L1_uc011lja.1_Missense_Mutation_p.G414E|PHF20L1_uc003ytu.1_Intron	NM_016018	NP_057102	A8MW92	P20L1_HUMAN	PHD finger protein 20-like 1 isoform 1	440							nucleic acid binding|zinc ion binding			ovary(2)	2	all_neural(3;2.72e-06)|Medulloblastoma(3;7.08e-05)|Ovarian(258;0.00438)|Esophageal squamous(12;0.00507)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;4.46e-05)			GCCACTGATGGGAAAGTATTC	0.403													4	36					0	0	0.008291	0	0	
PHF20L1	51105	broad.mit.edu	37	8	133848857	133848857	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:133848857A>G	uc003ytt.2	+	16	2307	c.1982A>G	c.(1981-1983)CAG>CGG	p.Q661R	PHF20L1_uc011lja.1_Missense_Mutation_p.Q635R	NM_016018	NP_057102	A8MW92	P20L1_HUMAN	PHD finger protein 20-like 1 isoform 1	661							nucleic acid binding|zinc ion binding			ovary(2)	2	all_neural(3;2.72e-06)|Medulloblastoma(3;7.08e-05)|Ovarian(258;0.00438)|Esophageal squamous(12;0.00507)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;4.46e-05)			GAATACAATCAGGACTTTGAT	0.373													6	99					0	0	0.003080	0	0	
TG	7038	broad.mit.edu	37	8	133898950	133898950	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:133898950C>T	uc003ytw.2	+	9	1374	c.1333C>T	c.(1333-1335)CGA>TGA	p.R445*		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	445					hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		AGAAGCCATCCGAGCAATTTT	0.498													20	108					0	0	0.001882	0	0	
TG	7038	broad.mit.edu	37	8	133931753	133931753	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:133931753C>A	uc003ytw.2	+	21	4552	c.4511C>A	c.(4510-4512)GCT>GAT	p.A1504D	TG_uc010mdw.2_Missense_Mutation_p.A263D|TG_uc011ljb.1_5'UTR|TG_uc003ytx.1_RNA	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	1504					hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		TCTGCTGGAGCTTTCAGCCAG	0.428													5	97					3.59834e-05	3.78692e-05	0.001168	1	0	
TG	7038	broad.mit.edu	37	8	133961096	133961096	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:133961096A>G	uc003ytw.2	+	27	5350	c.5309A>G	c.(5308-5310)GAA>GGA	p.E1770G	TG_uc010mdw.2_Missense_Mutation_p.E529G|TG_uc011ljb.1_Missense_Mutation_p.E139G	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	1770	Type IIIB.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		GATCCCTCTGAAGCCTGGGCT	0.502													24	100					0	0	0.003330	0	0	
WISP1	8840	broad.mit.edu	37	8	134232921	134232921	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:134232921C>T	uc003yub.2	+	3	523	c.447C>T	c.(445-447)GGC>GGT	p.G149G	WISP1_uc003yuc.2_Intron|WISP1_uc010meb.2_Intron|WISP1_uc010mec.2_Intron|WISP1_uc010med.2_Intron|WISP1_uc003yud.2_Intron	NM_003882	NP_003873	O95388	WISP1_HUMAN	WNT1 inducible signaling pathway protein 1	149	VWFC.				cell adhesion|cell-cell signaling|regulation of cell growth|Wnt receptor signaling pathway	extracellular region|soluble fraction	insulin-like growth factor binding			central_nervous_system(1)|kidney(1)	2	all_epithelial(106;5.39e-23)|Lung NSC(106;7.26e-07)|all_lung(105;2.77e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0107)			GCATCGACGGCGCGGTGGGCT	0.667													7	24					0	0	0.001984	0	0	
WISP1	8840	broad.mit.edu	37	8	134237815	134237815	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:134237815A>G	uc003yub.2	+	4	869	c.793A>G	c.(793-795)ACA>GCA	p.T265A	WISP1_uc003yuc.2_Missense_Mutation_p.T178A|WISP1_uc010meb.2_Missense_Mutation_p.T93A|WISP1_uc010mec.2_Intron|WISP1_uc010med.2_Intron|WISP1_uc003yud.2_Intron	NM_003882	NP_003873	O95388	WISP1_HUMAN	WNT1 inducible signaling pathway protein 1	265					cell adhesion|cell-cell signaling|regulation of cell growth|Wnt receptor signaling pathway	extracellular region|soluble fraction	insulin-like growth factor binding			central_nervous_system(1)|kidney(1)	2	all_epithelial(106;5.39e-23)|Lung NSC(106;7.26e-07)|all_lung(105;2.77e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0107)			GGACATCCATACACTCATTAA	0.552													16	28					0	0	0.002299	0	0	
NDRG1	10397	broad.mit.edu	37	8	134276800	134276800	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:134276800G>T	uc003yuh.2	-	4	781	c.195C>A	c.(193-195)ATC>ATA	p.I65I	NDRG1_uc003yug.2_Silent_p.I65I|NDRG1_uc010mee.2_Intron|NDRG1_uc010mef.2_5'UTR|NDRG1_uc011ljh.1_5'UTR|NDRG1_uc011lji.1_Intron	NM_001135242	NP_001128714	Q92597	NDRG1_HUMAN	N-myc downstream regulated 1	65					cellular response to hypoxia|response to metal ion	cytoplasm|microtubule cytoskeleton|nucleus|plasma membrane	protein binding			ovary(4)	4	all_epithelial(106;4.26e-24)|Lung NSC(106;7.26e-07)|all_lung(105;2.77e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0107)			GGTTCATGCCGATGTCATGGT	0.572													11	53					7.03913e-09	7.54027e-09	0.001368	1	0	
ZFAT	57623	broad.mit.edu	37	8	135524778	135524778	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:135524778C>T	uc003yup.2	-	14	3476	c.3301G>A	c.(3301-3303)GTT>ATT	p.V1101I	ZFAT_uc011ljj.1_Missense_Mutation_p.V220I|ZFAT_uc003yun.2_Missense_Mutation_p.V1089I|ZFAT_uc003yuo.2_Missense_Mutation_p.V1089I|ZFAT_uc010meh.2_Intron|ZFAT_uc010mei.2_RNA|ZFAT_uc003yuq.2_Missense_Mutation_p.V1089I|ZFAT_uc010mej.2_Missense_Mutation_p.V1039I	NM_020863	NP_065914	Q9P243	ZFAT_HUMAN	zinc finger protein 406 isoform ZFAT-1	1101					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)			GTCCCTTGAACGTCTTCTTCG	0.532													23	101					0	0	0.002096	0	0	
ZFAT	57623	broad.mit.edu	37	8	135614866	135614866	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:135614866C>T	uc003yup.2	-	6	1271	c.1096G>A	c.(1096-1098)GTC>ATC	p.V366I	ZFAT_uc003yun.2_Missense_Mutation_p.V354I|ZFAT_uc003yuo.2_Missense_Mutation_p.V354I|ZFAT_uc010meh.2_Missense_Mutation_p.V354I|ZFAT_uc010mei.2_RNA|ZFAT_uc003yuq.2_Missense_Mutation_p.V354I|ZFAT_uc010mej.2_Missense_Mutation_p.V304I|ZFAT_uc003yur.2_Missense_Mutation_p.V354I	NM_020863	NP_065914	Q9P243	ZFAT_HUMAN	zinc finger protein 406 isoform ZFAT-1	366	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)			AGGTTCTTGACGTCAGAGTAC	0.557													17	70					0	0	0.008871	0	0	
COL22A1	169044	broad.mit.edu	37	8	139668154	139668154	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:139668154T>C	uc003yvd.2	-	45	3766	c.3319A>G	c.(3319-3321)AAT>GAT	p.N1107D	COL22A1_uc011ljo.1_Missense_Mutation_p.N387D	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	1107	Pro-rich.|Gly-rich.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)			GCCAAGAGATTTATGTCCCCT	0.378										HNSCC(7;0.00092)			13	241					0	0	0.001855	0	0	
COL22A1	169044	broad.mit.edu	37	8	139696666	139696666	+	Splice_Site	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:139696666A>G	uc003yvd.2	-	39	3459	c.3012_splice	c.e39+1	p.K1004_splice	COL22A1_uc011ljo.1_Splice_Site_p.K304_splice	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1						cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)			ACAAGCACTCACCTTGGTTCC	0.483										HNSCC(7;0.00092)			30	120					0	0	0.003755	0	0	
COL22A1	169044	broad.mit.edu	37	8	139833507	139833507	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:139833507C>T	uc003yvd.2	-	7	1564	c.1117G>A	c.(1117-1119)GCC>ACC	p.A373T		NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	373	TSP N-terminal.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)			ACGTTCTGGGCCTGGATGCTC	0.562										HNSCC(7;0.00092)			16	58					0	0	0.008871	0	0	
TRAPPC9	83696	broad.mit.edu	37	8	141321405	141321405	+	Missense_Mutation	SNP	C	T	T	rs148453804	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:141321405C>T	uc003yvj.2	-	10	1698	c.1564G>A	c.(1564-1566)GCC>ACC	p.A522T	TRAPPC9_uc003yvh.2_Missense_Mutation_p.A620T|TRAPPC9_uc003yvi.1_Missense_Mutation_p.A513T	NM_001160372	NP_001153844	Q96Q05	TPPC9_HUMAN	trafficking protein particle complex 9 isoform	522					cell differentiation	endoplasmic reticulum|Golgi apparatus				skin(2)	2						CCAGGGAGGGCGATGGGCTCC	0.552													13	32					0	0	0.003163	0	0	
EIF2C2	27161	broad.mit.edu	37	8	141570572	141570572	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:141570572C>T	uc003yvn.2	-	5	596	c.556G>A	c.(556-558)GAA>AAA	p.E186K	EIF2C2_uc010men.2_Missense_Mutation_p.E109K|EIF2C2_uc010meo.2_Missense_Mutation_p.E186K	NM_012154	NP_036286	Q9UKV8	AGO2_HUMAN	argonaute 2 isoform 1	186					mRNA cleavage involved in gene silencing by miRNA|negative regulation of translation involved in gene silencing by miRNA|negative regulation of translational initiation|pre-miRNA processing|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|mRNA cap binding complex|nucleus|polysome|RNA-induced silencing complex	endoribonuclease activity, cleaving siRNA-paired mRNA|metal ion binding|protein binding|RNA 7-methylguanosine cap binding|siRNA binding|translation initiation factor activity				0	all_cancers(97;2.54e-14)|all_epithelial(106;5.99e-13)|Lung NSC(106;1.45e-05)|all_lung(105;2.07e-05)|Ovarian(258;0.0154)|Acute lymphoblastic leukemia(118;0.155)	Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.158)			GAGCAGCCTTCGGACGCGGTG	0.597													6	37					0	0	0.000978	0	0	
DENND3	22898	broad.mit.edu	37	8	142151331	142151331	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:142151331G>A	uc003yvy.2	+	4	569	c.291G>A	c.(289-291)ACG>ACA	p.T97T	DENND3_uc003yvw.1_Silent_p.T110T|DENND3_uc003yvx.2_Missense_Mutation_p.R176H|DENND3_uc010mep.2_Silent_p.T110T	NM_014957	NP_055772	A2RUS2	DEND3_HUMAN	DENN/MADD domain containing 3	97										ovary(1)	1	all_cancers(97;7.36e-15)|all_epithelial(106;2.33e-13)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.105)			ATGGCAAAACGCACCGGGAGT	0.532													6	67					0	0	0.003080	0	0	
PTP4A3	11156	broad.mit.edu	37	8	142432393	142432393	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:142432393G>A	uc003ywg.1	+	1	387	c.53G>A	c.(52-54)CGC>CAC	p.R18H	PTP4A3_uc003ywh.1_Missense_Mutation_p.R18H|PTP4A3_uc010met.1_Missense_Mutation_p.R18H	NM_032611	NP_116000	O75365	TP4A3_HUMAN	protein tyrosine phosphatase type IVA, member 3	18						early endosome|plasma membrane	identical protein binding|prenylated protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0	all_cancers(97;2.55e-15)|all_epithelial(106;1.39e-13)|Lung NSC(106;2.07e-05)|all_lung(105;2.89e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0474)			AAACACATGCGCTTCCTCATC	0.657													14	81					0	0	0.003163	0	0	
TSNARE1	203062	broad.mit.edu	37	8	143396392	143396392	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:143396392G>A	uc003ywk.2	-	8	1164	c.1046C>T	c.(1045-1047)GCC>GTC	p.A349V	TSNARE1_uc011lju.1_Missense_Mutation_p.A348V|TSNARE1_uc003ywj.2_Missense_Mutation_p.A349V|TSNARE1_uc003ywl.3_Missense_Mutation_p.A129V	NM_145003	NP_659440	Q96NA8	TSNA1_HUMAN	t-SNARE domain containing 1	349					vesicle-mediated transport	integral to membrane					0	all_cancers(97;7.39e-11)|all_epithelial(106;8.98e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000332)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					GCACTGAATGGCATCTGAGAG	0.637													4	53					0	0	0.001168	0	0	
GLI4	2738	broad.mit.edu	37	8	144358659	144358659	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:144358659C>T	uc003yxx.2	+	4	901	c.816C>T	c.(814-816)TGC>TGT	p.C272C	ZFP41_uc003yxv.2_RNA	NM_138465	NP_612474	P10075	GLI4_HUMAN	GLI-Kruppel family member GLI4	272	C2H2-type 4.					nucleus	DNA binding|zinc ion binding				0	all_cancers(97;1.01e-10)|all_epithelial(106;4.86e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.156)|Colorectal(110;0.173)			GCGGCGAGTGCGGCCAGGCCT	0.672													4	32					0	0	0.008291	0	0	
EEF1D	1936	broad.mit.edu	37	8	144663239	144663239	+	Silent	SNP	C	T	T	rs138645618		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:144663239C>T	uc011lki.1	-	5	644	c.375G>A	c.(373-375)ACG>ACA	p.T125T	NAPRT1_uc003yym.3_5'Flank|NAPRT1_uc003yyn.3_5'Flank|NAPRT1_uc011lkh.1_5'Flank|NAPRT1_uc003yyo.3_5'Flank|EEF1D_uc003yyp.1_Silent_p.T467T|EEF1D_uc003yyq.1_Silent_p.T541T|EEF1D_uc011lkj.1_Silent_p.T490T|EEF1D_uc003yyr.2_Silent_p.T491T|EEF1D_uc003yyt.2_Silent_p.T491T|EEF1D_uc011lkk.1_Silent_p.T125T|EEF1D_uc003yys.2_Silent_p.T125T|EEF1D_uc003yyv.2_Silent_p.T101T|EEF1D_uc003yyu.2_Silent_p.T125T|EEF1D_uc011lkl.1_Silent_p.T106T	NM_001130057	NP_001123529	P29692	EF1D_HUMAN	eukaryotic translation elongation factor 1 delta	125					positive regulation of I-kappaB kinase/NF-kappaB cascade	cytosol|eukaryotic translation elongation factor 1 complex	protein binding|signal transducer activity|translation elongation factor activity			ovary(1)|kidney(1)|skin(1)	3	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.134)|BRCA - Breast invasive adenocarcinoma(115;0.239)			TCTGTGGGGCCGTGGCCCGGT	0.697													4	31					0	0	0.000602	0	0	
EPPK1	83481	broad.mit.edu	37	8	144945091	144945091	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:144945091C>T	uc003zaa.1	-	1	2344	c.2331G>A	c.(2329-2331)ACG>ACA	p.T777T		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	777	Plectin 15.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GCTGCAGGTACGTGAGGTTCT	0.622													6	81					0	0	0.001168	0	0	
PARP10	84875	broad.mit.edu	37	8	145059646	145059646	+	Missense_Mutation	SNP	G	C	C	rs34804171		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:145059646G>C	uc003zal.3	-	4	715	c.607C>G	c.(607-609)CCC>GCC	p.P203A	PARP10_uc003zak.3_5'Flank|PARP10_uc011lku.1_Missense_Mutation_p.P215A|PARP10_uc011lkv.1_RNA|PARP10_uc003zam.2_Missense_Mutation_p.P203A|PARP10_uc010mfn.1_Missense_Mutation_p.P118A|PARP10_uc010mfo.1_Silent_p.G95G	NM_032789	NP_116178	Q53GL7	PAR10_HUMAN	poly (ADP-ribose) polymerase family, member 10	203						Golgi apparatus|nucleolus	NAD+ ADP-ribosyltransferase activity|nucleotide binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)|pancreas(1)	6	all_cancers(97;8.2e-11)|all_epithelial(106;1.1e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.31e-40)|Epithelial(56;1.16e-39)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			TCCTCCAGGGGCCCCCCACCA	0.687													4	9					0	0	0.009096	0	0	
RECQL4	9401	broad.mit.edu	37	8	145739054	145739054	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:145739054C>T	uc003zdj.2	-	13	2133	c.2101G>A	c.(2101-2103)GAT>AAT	p.D701N		NM_004260	NP_004251	O94761	RECQ4_HUMAN	RecQ protein-like 4	701	Helicase C-terminal.				DNA duplex unwinding|DNA recombination|DNA repair	cytoplasm|nucleus	ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|DNA strand annealing activity|zinc ion binding			breast(2)|lung(1)|skin(1)	4	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			ATAATGGAATCGAGGTTTTGA	0.453			N|F|S			osteosarcoma|skin basal and sqamous cell		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	RAPADILINO_syndrome|Rothmund-Thomson_syndrome|Baller-Gerold_syndrome				4	5					0	0	0.001168	0	0	
ARHGAP39	80728	broad.mit.edu	37	8	145770858	145770858	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:145770858C>T	uc003zdt.1	-	7	2851	c.2296G>A	c.(2296-2298)GTG>ATG	p.V766M	ARHGAP39_uc011llk.1_Missense_Mutation_p.V766M|ARHGAP39_uc003zds.1_Missense_Mutation_p.V766M	NM_025251	NP_079527	Q9C0H5	RHG39_HUMAN	KIAA1688 protein	766	MyTH4.				axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|nucleus	GTPase activator activity				0						TCCAGGGCCACGTGCAGTGGG	0.657													5	25					0	0	0.000602	0	0	
DOCK8	81704	broad.mit.edu	37	9	418150	418150	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:418150G>T	uc003zgf.2	+	30	3895	c.3783G>T	c.(3781-3783)CTG>CTT	p.L1261L	DOCK8_uc010mgu.2_Silent_p.L563L|DOCK8_uc010mgv.2_Silent_p.L1161L|DOCK8_uc003zgk.2_Silent_p.L719L	NM_203447	NP_982272	Q8NF50	DOCK8_HUMAN	dedicator of cytokinesis 8	1261					blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)	6		all_cancers(5;2.13e-17)|all_epithelial(5;2.15e-12)|all_lung(10;6.69e-11)|Lung NSC(10;1.08e-10)|Acute lymphoblastic leukemia(5;0.000242)|all_hematologic(5;0.00317)|Breast(48;0.0151)|Prostate(43;0.128)		all cancers(5;9.3e-07)|GBM - Glioblastoma multiforme(5;2.41e-06)|Epithelial(6;0.00557)|Lung(218;0.00942)		ATGTGGCTCTGGCCATAGCAG	0.443													23	88					1.77063e-15	1.92794e-15	0.005443	1	0	
SMARCA2	6595	broad.mit.edu	37	9	2058432	2058432	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:2058432C>T	uc003zhc.2	+	8	1588	c.1489C>T	c.(1489-1491)CGG>TGG	p.R497W	SMARCA2_uc003zhd.2_Missense_Mutation_p.R497W|SMARCA2_uc010mha.2_Missense_Mutation_p.R488W	NM_003070	NP_003061	P51531	SMCA2_HUMAN	SWI/SNF-related matrix-associated	497	HSA.				chromatin remodeling|negative regulation of cell growth|negative regulation of transcription from RNA polymerase II promoter|nervous system development	intermediate filament cytoskeleton|nBAF complex|npBAF complex|nuclear chromatin|nucleoplasm|SWI/SNF complex|WINAC complex	ATP binding|DNA-dependent ATPase activity|helicase activity|protein binding|RNA polymerase II transcription coactivator activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)	3		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		GGAGACAGAGCGGATTGAAAA	0.512													34	97					0	0	0.004878	0	0	
SMARCA2	6595	broad.mit.edu	37	9	2115922	2115922	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:2115922C>T	uc003zhc.2	+	25	3656	c.3557C>T	c.(3556-3558)GCG>GTG	p.A1186V	SMARCA2_uc003zhd.2_Missense_Mutation_p.A1186V|SMARCA2_uc010mha.2_Missense_Mutation_p.A1119V	NM_003070	NP_003061	P51531	SMCA2_HUMAN	SWI/SNF-related matrix-associated	1186	Helicase C-terminal.				chromatin remodeling|negative regulation of cell growth|negative regulation of transcription from RNA polymerase II promoter|nervous system development	intermediate filament cytoskeleton|nBAF complex|npBAF complex|nuclear chromatin|nucleoplasm|SWI/SNF complex|WINAC complex	ATP binding|DNA-dependent ATPase activity|helicase activity|protein binding|RNA polymerase II transcription coactivator activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)	3		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		AAGATCCTCGCGGCCGCAAAA	0.582													12	34					0	0	0.001855	0	0	
KCNV2	169522	broad.mit.edu	37	9	2719001	2719001	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:2719001G>A	uc003zho.1	+	1	1476	c.1262G>A	c.(1261-1263)GGC>GAC	p.G421D		NM_133497	NP_598004	Q8TDN2	KCNV2_HUMAN	potassium channel, subfamily V, member 2	421	Helical; Name=Segment S5; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(50;0.0257)		ATCGCCATGGGCATCTTCACT	0.632													5	16					0	0	0.003080	0	0	
KIAA0020	9933	broad.mit.edu	37	9	2811408	2811408	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:2811408C>T	uc003zhp.1	-	15	1684	c.1588G>A	c.(1588-1590)GCC>ACC	p.A530T	KIAA0020_uc010mhc.1_Missense_Mutation_p.A529T|KIAA0020_uc003zhq.1_Missense_Mutation_p.A529T	NM_014878	NP_055693	Q15397	K0020_HUMAN	KIAA0020 protein	530						endoplasmic reticulum|nucleolus	RNA binding			ovary(1)	1				GBM - Glioblastoma multiforme(50;0.0319)		GCCAAGCTGGCGATGGCATTC	0.527													30	86					0	0	0.007835	0	0	
KIAA0020	9933	broad.mit.edu	37	9	2824797	2824797	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:2824797G>A	uc003zhp.1	-	11	1150	c.1054C>T	c.(1054-1056)CGC>TGC	p.R352C	KIAA0020_uc010mhc.1_Missense_Mutation_p.R351C|KIAA0020_uc003zhq.1_Missense_Mutation_p.R351C	NM_014878	NP_055693	Q15397	K0020_HUMAN	KIAA0020 protein	352	Pumilio 4.|PUM-HD.					endoplasmic reticulum|nucleolus	RNA binding			ovary(1)	1				GBM - Glioblastoma multiforme(50;0.0319)		ACCGCTTCGCGGATGGCTTCA	0.527													3	7					0	0	0.004672	0	0	
KIAA0020	9933	broad.mit.edu	37	9	2829854	2829854	+	Missense_Mutation	SNP	C	T	T	rs62534389		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:2829854C>T	uc003zhp.1	-	8	868	c.772G>A	c.(772-774)GCA>ACA	p.A258T	KIAA0020_uc010mhc.1_Missense_Mutation_p.A257T|KIAA0020_uc003zhq.1_Missense_Mutation_p.A257T	NM_014878	NP_055693	Q15397	K0020_HUMAN	KIAA0020 protein	258	Pumilio 3.|PUM-HD.					endoplasmic reticulum|nucleolus	RNA binding			ovary(1)	1				GBM - Glioblastoma multiforme(50;0.0319)		TCATTGTATGCGTACTCCACG	0.458													57	115					0	0	0.003610	0	0	
C9orf68	55064	broad.mit.edu	37	9	4625438	4625438	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:4625438C>T	uc011llz.1	-	5	622	c.384G>A	c.(382-384)GCG>GCA	p.A128A	C9orf68_uc003zik.2_RNA|C9orf68_uc003zil.2_RNA|C9orf68_uc010mhj.2_Silent_p.A186A|C9orf68_uc011lly.1_Silent_p.A63A	NM_001039395	NP_001034484	B4DIY4	B4DIY4_HUMAN	hypothetical protein LOC55064	128											0		Breast(48;0.0456)		GBM - Glioblastoma multiforme(50;0.0222)		ATTGAGAGGGCGCCCGGGCTT	0.423													18	34					0	0	0.007413	0	0	
AK3	50808	broad.mit.edu	37	9	4718478	4718478	+	Silent	SNP	C	T	T	rs141049546		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:4718478C>T	uc003ziq.1	-	4	644	c.504G>A	c.(502-504)ACG>ACA	p.T168T	AK3_uc003zip.1_RNA|AK3_uc011lma.1_Silent_p.T128T|AK3_uc003zir.1_Silent_p.T98T	NM_016282	NP_057366	Q9UIJ7	KAD3_HUMAN	adenylate kinase 3	168					blood coagulation	mitochondrial matrix	ATP binding|GTP binding|nucleoside triphosphate adenylate kinase activity			ovary(2)	2	all_hematologic(13;0.137)	Breast(48;0.238)		GBM - Glioblastoma multiforme(50;0.0302)		TCTTGATAACCGTCTCTGGTT	0.423													20	62					0	0	0.008871	0	0	
RCL1	10171	broad.mit.edu	37	9	4844593	4844593	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:4844593C>T	uc003zis.2	+	7	1037	c.779C>T	c.(778-780)GCC>GTC	p.A260V	RCL1_uc003zit.2_Missense_Mutation_p.A102V|RCL1_uc010mhk.1_Missense_Mutation_p.A102V|RCL1_uc010mhl.1_Missense_Mutation_p.A74V	NM_005772	NP_005763	Q9Y2P8	RCL1_HUMAN	RNA terminal phosphate cyclase-like 1	260					ribosome biogenesis|RNA processing	nucleolus	RNA-3'-phosphate cyclase activity				0	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.0206)|Breast(48;0.147)		GBM - Glioblastoma multiforme(50;0.0244)		GCTGAACTGGCCTCCAACCCC	0.582													15	49					0	0	0.004990	0	0	
KIAA2026	158358	broad.mit.edu	37	9	5922824	5922824	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:5922824T>C	uc003zjq.3	-	8	3388	c.3172A>G	c.(3172-3174)ACA>GCA	p.T1058A	KIAA2026_uc010mht.2_Missense_Mutation_p.T233A	NM_001017969	NP_001017969	Q5HYC2	K2026_HUMAN	hypothetical protein LOC158358	1058										ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00155)|Lung(218;0.124)		GGACCTTTTGTATTGGTGTGG	0.458													4	64					0	0	0.000602	0	0	
UHRF2	115426	broad.mit.edu	37	9	6504628	6504628	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:6504628C>T	uc003zjy.2	+	15	2539	c.2199C>T	c.(2197-2199)TGC>TGT	p.C733C	UHRF2_uc003zjz.2_RNA|UHRF2_uc003zkb.2_RNA	NM_152896	NP_690856	Q96PU4	UHRF2_HUMAN	ubiquitin-like with PHD and ring finger domains	733	RING-type.				cell cycle|cell differentiation|cell proliferation|protein autoubiquitination|regulation of cell cycle|ubiquitin-dependent protein catabolic process	nucleus	DNA binding|histone binding|ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.0392)|Lung(218;0.129)		CTTTTATGTGCGTTTGCTGTC	0.358													7	20					0	0	0.001984	0	0	
NFIB	4781	broad.mit.edu	37	9	14150263	14150263	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:14150263C>T	uc003zle.2	-	5	1122	c.687G>A	c.(685-687)ACG>ACA	p.T229T	NFIB_uc003zld.2_5'UTR|NFIB_uc003zlf.2_Silent_p.T229T|NFIB_uc011lmo.1_Silent_p.T229T	NM_005596	NP_005587	O00712	NFIB_HUMAN	nuclear factor I/B	229					anterior commissure morphogenesis|chondrocyte differentiation|Clara cell differentiation|commissural neuron axon guidance|DNA replication|glial cell differentiation|lung ciliated cell differentiation|negative regulation of DNA binding|negative regulation of epithelial cell proliferation involved in lung morphogenesis|negative regulation of mesenchymal cell proliferation involved in lung development|positive regulation of transcription from RNA polymerase II promoter|principal sensory nucleus of trigeminal nerve development|Type I pneumocyte differentiation|Type II pneumocyte differentiation	cerebellar mossy fiber|nucleolus|nucleus	RNA polymerase II transcription corepressor activity|sequence-specific DNA binding RNA polymerase II transcription factor activity				0				GBM - Glioblastoma multiforme(50;4.4e-08)|LUAD - Lung adenocarcinoma(58;0.119)|Lung(218;0.164)		GGGTTATGGGCGCTGAGGAAT	0.438			T	MYB|HGMA2	adenoid cystic carcinoma|lipoma								17	244					0	0	0.004990	0	0	
FREM1	158326	broad.mit.edu	37	9	14775838	14775838	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:14775838G>A	uc003zlm.2	-	25	5396	c.4806C>T	c.(4804-4806)GGC>GGT	p.G1602G	FREM1_uc010mic.2_Intron|FREM1_uc003zlk.2_5'Flank|FREM1_uc003zll.2_Silent_p.G138G	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	1602	CSPG 11.				cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		TCACAATAAAGCCTTGGTTTG	0.468													4	39					0	0	0.000602	0	0	
PSIP1	11168	broad.mit.edu	37	9	15472661	15472661	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:15472661G>A	uc003zlv.3	-	10	1276	c.946C>T	c.(946-948)CGC>TGC	p.R316C	PSIP1_uc003zlw.3_Missense_Mutation_p.R316C|PSIP1_uc003zlz.3_Missense_Mutation_p.R316C|PSIP1_uc003zma.3_Missense_Mutation_p.R307C|PSIP1_uc003zly.2_Missense_Mutation_p.R316C	NM_033222	NP_150091	O75475	PSIP1_HUMAN	PC4 and SFRS1 interacting protein 1 isoform 2	316	Potential.				initiation of viral infection|interspecies interaction between organisms|nuclear mRNA 5'-splice site recognition|provirus integration|regulation of transcription, DNA-dependent|response to heat|response to oxidative stress|transcription, DNA-dependent	cytosol|nuclear heterochromatin|nuclear periphery|nucleoplasm|nucleoplasm|transcriptionally active chromatin	activating transcription factor binding|chromatin binding|DNA secondary structure binding|RNA polymerase II transcription coactivator activity			breast(1)	1				GBM - Glioblastoma multiforme(50;2.38e-06)		TCTTGCTTGCGTTTTCGATCT	0.358													28	65					0	0	0.006320	0	0	
C9orf93	203238	broad.mit.edu	37	9	15777674	15777674	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:15777674T>C	uc003zmd.2	+	19	3063	c.2748T>C	c.(2746-2748)ATT>ATC	p.I916I	C9orf93_uc003zme.2_Silent_p.I831I|C9orf93_uc011lmu.1_Silent_p.I924I|C9orf93_uc003zmf.1_Silent_p.I224I	NM_173550	NP_775821	Q6TFL3	CI093_HUMAN	hypothetical protein LOC203238	916											0				GBM - Glioblastoma multiforme(50;4.84e-07)		TGGATAAAATTAGTCTGGTAA	0.378													22	53					0	0	0.002299	0	0	
C9orf93	203238	broad.mit.edu	37	9	15874641	15874641	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:15874641C>T	uc003zmd.2	+	24	3895	c.3580C>T	c.(3580-3582)CCA>TCA	p.P1194S	C9orf93_uc003zme.2_Missense_Mutation_p.P1109S|C9orf93_uc011lmu.1_Missense_Mutation_p.P1202S|C9orf93_uc003zmf.1_Missense_Mutation_p.P502S	NM_173550	NP_775821	Q6TFL3	CI093_HUMAN	hypothetical protein LOC203238	1194											0				GBM - Glioblastoma multiforme(50;4.84e-07)		CAAGGGCGGGCCAGAGGTGGT	0.478													13	32					0	0	0.001855	0	0	
BNC2	54796	broad.mit.edu	37	9	16552745	16552745	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:16552745G>A	uc003zml.2	-	5	592	c.452C>T	c.(451-453)ACG>ATG	p.T151M	BNC2_uc011lmw.1_Missense_Mutation_p.T56M|BNC2_uc003zmm.2_Missense_Mutation_p.T109M|BNC2_uc003zmq.1_Missense_Mutation_p.T165M|BNC2_uc003zmr.1_Missense_Mutation_p.T188M|BNC2_uc003zmp.1_Missense_Mutation_p.T179M|BNC2_uc010mij.1_Missense_Mutation_p.T73M|BNC2_uc011lmv.1_Translation_Start_Site|BNC2_uc003zmo.1_Missense_Mutation_p.T73M	NM_017637	NP_060107	Q6ZN30	BNC2_HUMAN	basonuclin 2	151					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	zinc ion binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(50;9.01e-08)		CAGGTGCTGCGTGCTGAGCTT	0.517													15	38					0	0	0.007413	0	0	
BNC2	54796	broad.mit.edu	37	9	16738415	16738415	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:16738415T>G	uc003zml.2	-	2	212	c.72A>C	c.(70-72)CAA>CAC	p.Q24H	BNC2_uc011lmw.1_Intron|BNC2_uc003zmm.2_Intron|BNC2_uc003zmq.1_Missense_Mutation_p.Q38H|BNC2_uc003zmr.1_Missense_Mutation_p.Q24H|BNC2_uc003zmp.1_Missense_Mutation_p.Q24H|BNC2_uc010mij.1_Intron|BNC2_uc003zmu.1_RNA|BNC2_uc010mim.1_Intron|BNC2_uc010min.1_Intron	NM_017637	NP_060107	Q6ZN30	BNC2_HUMAN	basonuclin 2	24					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	zinc ion binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(50;9.01e-08)		CTGGCCAGTCTTGCTCACTAA	0.433													11	23					0	0	0.000978	0	0	
ADAMTSL1	92949	broad.mit.edu	37	9	18681926	18681926	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:18681926C>T	uc003zne.3	+	12	1585	c.1458C>T	c.(1456-1458)TGC>TGT	p.C486C	ADAMTSL1_uc003znc.3_Silent_p.C486C	NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	486	TSP type-1 3.					proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)		AAGAGGAATGCATCGTACCCA	0.488													66	224					0	0	0.003610	0	0	
ADAMTSL1	92949	broad.mit.edu	37	9	18706803	18706803	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:18706803C>T	uc003zne.3	+	14	1760	c.1633C>T	c.(1633-1635)CGA>TGA	p.R545*		NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	545	TSP type-1 4.					proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)		GACCCAGGTGCGAATAGTCAG	0.607													5	10					0	0	0.000602	0	0	
ADAMTSL1	92949	broad.mit.edu	37	9	18770654	18770654	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:18770654C>T	uc003zne.3	+	17	2399	c.2272C>T	c.(2272-2274)CGC>TGC	p.R758C		NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	758						proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)		TTGCAAGCAGCGCATGGCTGA	0.512													6	20					0	0	0.001984	0	0	
HAUS6	54801	broad.mit.edu	37	9	19058813	19058813	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:19058813G>A	uc003znk.2	-	16	2205	c.1952C>T	c.(1951-1953)TCT>TTT	p.S651F	HAUS6_uc011lmz.1_Missense_Mutation_p.S371F|HAUS6_uc003znl.1_Missense_Mutation_p.S515F	NM_017645	NP_060115	Q7Z4H7	HAUS6_HUMAN	HAUS augmin-like complex, subunit 6	651					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|nucleus|spindle				ovary(2)	2						AGTCAAATGAGACTGGCCAAA	0.398													6	86					0	0	0.001984	0	0	
DENND4C	55667	broad.mit.edu	37	9	19346603	19346603	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:19346603G>A	uc003znq.2	+	18	3014	c.2981G>A	c.(2980-2982)CGT>CAT	p.R994H	DENND4C_uc011lnc.1_Missense_Mutation_p.R324H|DENND4C_uc011lnd.1_Missense_Mutation_p.R282H|DENND4C_uc003znr.2_Missense_Mutation_p.R282H|DENND4C_uc003zns.2_Missense_Mutation_p.R176H|DENND4C_uc003znt.2_Missense_Mutation_p.R176H	NM_017925	NP_060395	Q5VZ89	DEN4C_HUMAN	DENN/MADD domain containing 4C	994						integral to membrane				ovary(1)|skin(1)	2						GTTATTGCACGTAATCTGGCT	0.378													27	61					0	0	0.005443	0	0	
RPS6	6194	broad.mit.edu	37	9	19379526	19379526	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:19379526C>T	uc003znv.1	-	2	139	c.97G>A	c.(97-99)GCC>ACC	p.A33T	RPS6_uc003znu.1_Missense_Mutation_p.A2T|RPS6_uc003znw.1_Missense_Mutation_p.A2T	NM_001010	NP_001001	P62753	RS6_HUMAN	ribosomal protein S6	33					endocrine pancreas development|glucose homeostasis|insulin receptor signaling pathway|positive regulation of apoptosis|rRNA processing|TOR signaling cascade|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit|nucleolus	protein binding			ovary(1)	1		Colorectal(97;3.46e-05)|Myeloproliferative disorder(762;0.0255)		Lung(42;0.161)|LUSC - Lung squamous cell carcinoma(42;0.234)		ACTTCTGTGGCCATACGCTTC	0.453													5	30					0	0	0.000602	0	0	
MLLT3	4300	broad.mit.edu	37	9	20448143	20448143	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:20448143C>T	uc003zoe.2	-	4	657	c.398G>A	c.(397-399)AGA>AAA	p.R133K	MLLT3_uc011lne.1_Missense_Mutation_p.R101K|MLLT3_uc011lnf.1_Missense_Mutation_p.R130K|MLLT3_uc003zof.2_Intron|MLLT3_uc011lng.1_Missense_Mutation_p.R101K	NM_004529	NP_004520	P42568	AF9_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	133					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			lung(2)|ovary(1)	3				GBM - Glioblastoma multiforme(3;4.35e-105)|Lung(42;3.48e-06)|LUSC - Lung squamous cell carcinoma(42;7.92e-05)		CAGCAACTTTCTCCTAAAGTC	0.403			T	MLL	ALL								6	129					0	0	0.003080	0	0	
IFNB1	3456	broad.mit.edu	37	9	21077640	21077640	+	Missense_Mutation	SNP	C	T	T	rs146710785	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:21077640C>T	uc003zok.2	-	1	304	c.229G>A	c.(229-231)GCA>ACA	p.A77T		NM_002176	NP_002167	P01574	IFNB_HUMAN	interferon, beta 1, fibroblast precursor	77					activation of caspase activity|B cell proliferation|blood coagulation|cellular response to exogenous dsRNA|defense response to virus|induction of apoptosis|natural killer cell activation|negative regulation of cell proliferation|negative regulation of T cell differentiation|negative regulation of T-helper 2 cell cytokine production|negative regulation of viral genome replication|negative regulation of viral transcription|negative regulation of virion penetration into host cell|positive regulation of innate immune response|positive regulation of transcription from RNA polymerase II promoter|regulation of MHC class I biosynthetic process|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding|transcription corepressor activity			ovary(1)|breast(1)|kidney(1)	3				GBM - Glioblastoma multiforme(5;7.45e-142)|Lung(24;2.42e-17)|LUSC - Lung squamous cell carcinoma(38;7.17e-11)	Interferon beta-1a(DB00060)|Interferon beta-1b(DB00068)	ATGGTCAATGCGGCGTCCTCC	0.473													8	117					0	0	0.004482	0	0	
IFNA16	3449	broad.mit.edu	37	9	21217077	21217077	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:21217077G>T	uc003zor.1	-	1	234	c.228C>A	c.(226-228)GCC>GCA	p.A76A	IFNA14_uc003zoo.1_Intron	NM_002173	NP_002164	P05015	IFN16_HUMAN	interferon, alpha 16 precursor	76					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding			skin(1)	1				Lung(24;2.12e-22)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.116)		AGGCAGAGATGGCTTGAGCCT	0.473													40	98					6.5261e-18	7.13566e-18	0.008740	1	0	
KLHL9	55958	broad.mit.edu	37	9	21333437	21333437	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:21333437C>T	uc003zoy.2	-	1	1993	c.1422G>A	c.(1420-1422)ATG>ATA	p.M474I	KLHL9_uc003zow.2_Intron|KLHL9_uc003zox.2_RNA	NM_018847	NP_061335	Q9P2J3	KLHL9_HUMAN	kelch-like 9	474	Kelch 4.				cytokinesis|mitosis|protein ubiquitination	Cul3-RING ubiquitin ligase complex|midbody				ovary(3)|skin(1)	4				Lung(24;8.52e-27)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.118)		GAGCCTTTTGCATCCATTTAT	0.413													9	200					0	0	0.008291	0	0	
LRRC19	64922	broad.mit.edu	37	9	26997741	26997741	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:26997741A>T	uc003zqh.2	-	3	691	c.580T>A	c.(580-582)TCA>ACA	p.S194T	IFT74_uc010mja.2_Intron|IFT74_uc010mjb.2_Intron|IFT74_uc003zqf.3_Intron|IFT74_uc003zqg.3_Intron	NM_022901	NP_075052	Q9H756	LRC19_HUMAN	leucine rich repeat containing 19 precursor	194	Extracellular (Potential).|LRRCT.					integral to membrane					0		all_neural(11;1.81e-09)		Lung(218;1.06e-05)|LUSC - Lung squamous cell carcinoma(38;0.0001)		GTCACATTTGATGTGTTCAAC	0.333													4	52					0	0	0.009096	0	0	
UBAP1	51271	broad.mit.edu	37	9	34241362	34241362	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:34241362G>A	uc003ztx.2	+	4	574	c.339G>A	c.(337-339)ATG>ATA	p.M113I	UBAP1_uc010mka.1_Missense_Mutation_p.M149I|UBAP1_uc003zty.2_Missense_Mutation_p.M113I|UBAP1_uc011loi.1_Missense_Mutation_p.M149I|UBAP1_uc011loj.1_Missense_Mutation_p.M177I|KIF24_uc010mkb.2_Intron|UBAP1_uc003ztz.2_Missense_Mutation_p.M113I	NM_016525	NP_057609	Q9NZ09	UBAP1_HUMAN	ubiquitin associated protein 1	113						cytoplasm					0			LUSC - Lung squamous cell carcinoma(29;0.00272)			CAGCCACAATGCCACCTCCTA	0.507													18	62					0	0	0.002299	0	0	
DNAI1	27019	broad.mit.edu	37	9	34514714	34514714	+	Missense_Mutation	SNP	G	A	A	rs145483542		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:34514714G>A	uc003zum.2	+	18	1988	c.1795G>A	c.(1795-1797)GCA>ACA	p.A599T		NM_012144	NP_036276	Q9UI46	DNAI1_HUMAN	dynein, axonemal, intermediate chain 1	599	WD 4.				cell projection organization	cilium axoneme|cytoplasm|dynein complex|microtubule	motor activity				0	all_epithelial(49;0.244)		LUSC - Lung squamous cell carcinoma(29;0.0107)|STAD - Stomach adenocarcinoma(86;0.212)	GBM - Glioblastoma multiforme(74;0.0222)		TACTGTGTTCGCAGCAGTCAC	0.562									Kartagener_syndrome				5	57					0	0	0.001168	0	0	
C9orf131	138724	broad.mit.edu	37	9	35045333	35045333	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:35045333C>A	uc003zvw.2	+	2	2736	c.2707C>A	c.(2707-2709)CCA>ACA	p.P903T	C9orf131_uc003zvu.2_Missense_Mutation_p.P855T|C9orf131_uc003zvv.2_Missense_Mutation_p.P830T|C9orf131_uc003zvx.2_Missense_Mutation_p.P868T	NM_203299	NP_976044	Q5VYM1	CI131_HUMAN	hypothetical protein LOC138724 isoform A	903											0	all_epithelial(49;0.22)		LUSC - Lung squamous cell carcinoma(32;0.00117)|Lung(28;0.00309)			ATCCCAAGGGCCATGTGTACA	0.557													14	161					0.000422831	0.000441874	0.004007	1	0	
KIAA1539	80256	broad.mit.edu	37	9	35107927	35107927	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:35107927G>A	uc003zwl.2	-	3	670	c.345C>T	c.(343-345)AGC>AGT	p.S115S	KIAA1539_uc003zwm.2_Silent_p.S115S|KIAA1539_uc003zwn.2_Intron|KIAA1539_uc003zwo.2_Silent_p.S115S|KIAA1539_uc003zwp.1_Silent_p.S115S|KIAA1539_uc010mkk.1_Intron	NM_025182	NP_079458	Q7L5A3	K1539_HUMAN	hypothetical protein LOC80256	115						nucleus				ovary(2)	2	all_epithelial(49;0.217)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			AGAAATGCTGGCTGGCCACAC	0.632													4	26					0	0	0.001168	0	0	
CREB3	10488	broad.mit.edu	37	9	35736398	35736398	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:35736398G>A	uc003zxv.2	+	9	1244	c.791G>A	c.(790-792)CGC>CAC	p.R264H	CREB3_uc010mla.2_Missense_Mutation_p.R183H	NM_006368	NP_006359	O43889	CREB3_HUMAN	cAMP responsive element binding protein 3	288	Lumenal (Potential).				chemotaxis|induction of positive chemotaxis|interspecies interaction between organisms|negative regulation of cell cycle|positive regulation of calcium ion transport|positive regulation of cell migration|positive regulation of transcription, DNA-dependent|reactivation of latent virus|regulation of cell proliferation	cytosol|endoplasmic reticulum|endoplasmic reticulum membrane|Golgi apparatus|integral to membrane|integral to membrane|nucleus|nucleus	cAMP response element binding protein binding|CCR1 chemokine receptor binding|DNA binding|protein dimerization activity|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity				0	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)	GBM - Glioblastoma multiforme(74;0.0285)		GTGTTGTCCCGCCAGCTTCGT	0.582											OREG0019176	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	48					0	0	0.003080	0	0	
GLIPR2	152007	broad.mit.edu	37	9	36162402	36162402	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:36162402C>T	uc003zyz.2	+	5	382	c.348C>T	c.(346-348)GGC>GGT	p.G116G	GLIPR2_uc010mlf.1_3'UTR|GLIPR2_uc003zza.2_RNA|GLIPR2_uc003zyy.1_Intron	NM_022343	NP_071738	Q9H4G4	GAPR1_HUMAN	GLI pathogenesis-related 2	116				TGHFTAMVWKNTKKMGVGKASASDGSSFVVARYFPAGNVVN EGFFEENVLPPKK -> IRFFFFNFLLFLSKPLLYFSYF (in Ref. 3; BAC11019).		extracellular region|Golgi membrane				skin(3)|central_nervous_system(1)	4						AGAAGATGGGCGTGGGGAAGG	0.562													5	81					0	0	0.000602	0	0	
MCART1	92014	broad.mit.edu	37	9	37888210	37888210	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:37888210A>G	uc004aau.2	-	3	1082	c.338T>C	c.(337-339)GTC>GCC	p.V113A	MCART1_uc004aar.1_Intron|MCART1_uc004aaq.1_Intron|uc004aat.1_5'Flank|MCART1_uc004aav.2_Missense_Mutation_p.V113A	NM_033412	NP_219480	Q9H1U9	MCAR1_HUMAN	mitochondrial carrier triple repeat 1	113					transport	integral to membrane|mitochondrial inner membrane				ovary(2)|breast(1)	3				GBM - Glioblastoma multiforme(29;0.00559)|Lung(182;0.0422)		TGGAGCACTGACATGCTTGTG	0.478													38	85					0	0	0.003214	0	0	
Unknown	0	broad.mit.edu	37	9	66457092	66457092	+	RNA	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:66457092G>T	uc010mng.1	-	1		c.51C>A			uc004aeb.2_Missense_Mutation_p.H197Q|uc004aec.2_5'Flank					Homo sapiens cDNA, FLJ98602.																		ctacaactcggtgtctgaggg	0.01													5	13					1.06961e-07	1.14085e-07	0.003080	1	0	
Unknown	0	broad.mit.edu	37	9	66466422	66466422	+	RNA	SNP	C	T	T	rs139174617	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:66466422C>T	uc004aec.2	+	3		c.1055C>T								Homo sapiens, clone IMAGE:5213378, mRNA.																		gcatttctctctttgtgatag	0													4	23					0	0	0.001984	0	0	
Unknown	0	broad.mit.edu	37	9	66513840	66513840	+	RNA	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:66513840G>A	uc010mnh.1	-	6		c.908C>T								Homo sapiens cDNA FLJ20444 fis, clone KAT05128.																		CATGATCAACGCAGTGACTCT	0.498													5	136					0	0	0.001368	0	0	
AQP7P1	375719	broad.mit.edu	37	9	67281843	67281843	+	RNA	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:67281843G>A	uc004aem.1	-	1		c.62C>T			AQP7P1_uc004aen.1_Intron|AQP7P1_uc004aeo.1_Intron|AQP7P1_uc004aep.1_Intron					Homo sapiens aquaporin 7 pseudogene 1, mRNA (cDNA clone IMAGE:6191443).												0						TGATACAGTGGCCCGAGCCCA	0.542													5	41					0	0	0.000602	0	0	
FAM122A	116224	broad.mit.edu	37	9	71395646	71395646	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:71395646G>A	uc004agw.1	+	1	683	c.566G>A	c.(565-567)AGC>AAC	p.S189N	PIP5K1B_uc004agu.2_Intron|PIP5K1B_uc011lrq.1_Intron|PIP5K1B_uc004agv.2_Intron	NM_138333	NP_612206	Q96E09	F122A_HUMAN	hypothetical protein LOC116224	189											0						AGAAGCCAGAGCCCCATCAAT	0.458													6	81					0	0	0.001984	0	0	
APBA1	320	broad.mit.edu	37	9	72131639	72131639	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:72131639G>A	uc004ahh.2	-	2	764	c.488C>T	c.(487-489)GCG>GTG	p.A163V		NM_001163	NP_001154	Q02410	APBA1_HUMAN	amyloid beta A4 precursor protein-binding,	163					axon cargo transport|cell adhesion|intracellular protein transport|nervous system development|protein complex assembly|synaptic transmission	synaptic vesicle				lung(1)	1						TGAGTAGGCCGCATTCATGGC	0.682													3	2					0	0	0.009096	0	0	
SMC5	23137	broad.mit.edu	37	9	72933542	72933542	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:72933542C>T	uc004ahr.2	+	14	2036	c.1919C>T	c.(1918-1920)GCG>GTG	p.A640V	uc004ahs.1_5'Flank	NM_015110	NP_055925	Q8IY18	SMC5_HUMAN	SMC5 protein	640	Flexible hinge.				DNA recombination|DNA repair	chromosome|nucleus	ATP binding			ovary(2)|central_nervous_system(1)	3						CTAAAAGTAGCGCAGTTTCTC	0.333													27	99					0	0	0.008361	0	0	
TRPM3	80036	broad.mit.edu	37	9	73151051	73151051	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:73151051C>T	uc004aid.2	-	25	5186	c.4942G>A	c.(4942-4944)GCA>ACA	p.A1648T	TRPM3_uc004ahu.2_Missense_Mutation_p.A1490T|TRPM3_uc004ahv.2_Missense_Mutation_p.A1450T|TRPM3_uc004ahw.2_Missense_Mutation_p.A1520T|TRPM3_uc004ahx.2_Missense_Mutation_p.A1507T|TRPM3_uc004ahy.2_Missense_Mutation_p.A1510T|TRPM3_uc004ahz.2_Missense_Mutation_p.A1497T|TRPM3_uc004aia.2_Missense_Mutation_p.A1495T|TRPM3_uc004aib.2_Missense_Mutation_p.A1485T|TRPM3_uc004aic.2_Intron	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	1673	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						CTGGTGTGTGCATATGGCGCA	0.547													61	248					0	0	0.003610	0	0	
RORB	6096	broad.mit.edu	37	9	77286710	77286710	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:77286710G>A	uc004aji.2	+	9	1199	c.1150G>A	c.(1150-1152)GCC>ACC	p.A384T	RORB_uc004ajh.2_Missense_Mutation_p.A373T	NM_006914	NP_008845	Q92753	RORB_HUMAN	RAR-related orphan receptor B	384	Ligand-binding (Potential).				eye photoreceptor cell development|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|visual perception	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(2)|lung(1)|skin(1)	4						ATCAGACCGAGCCTGGCTTAT	0.408													16	52					0	0	0.008871	0	0	
TRPM6	140803	broad.mit.edu	37	9	77415329	77415329	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:77415329C>T	uc004ajl.1	-	17	2317	c.2079G>A	c.(2077-2079)ACG>ACA	p.T693T	TRPM6_uc004ajk.1_Silent_p.T688T|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Intron|TRPM6_uc010mpd.1_Intron|TRPM6_uc010mpe.1_Intron|TRPM6_uc004ajm.1_Silent_p.T71T	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	693	Cytoplasmic (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						ACGTCAACAGCGTCATGGCCA	0.502													5	81					0	0	0.000602	0	0	
PCSK5	5125	broad.mit.edu	37	9	78686647	78686647	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:78686647C>T	uc004ajz.2	+	7	1265	c.727C>T	c.(727-729)CGA>TGA	p.R243*	PCSK5_uc004ajy.2_Nonsense_Mutation_p.R243*|PCSK5_uc004aka.2_RNA	NM_006200	NP_006191	Q92824	PCSK5_HUMAN	proprotein convertase subtilisin/kexin type 5	243	Catalytic.				anterior/posterior pattern formation|cell-cell signaling|cytokine biosynthetic process|embryo implantation|embryonic digestive tract development|embryonic skeletal system development|heart development|kidney development|limb morphogenesis|nerve growth factor processing|nerve growth factor receptor signaling pathway|peptide biosynthetic process|renin secretion into blood stream|respiratory tube development|signal peptide processing|viral assembly, maturation, egress, and release	extracellular space|Golgi lumen|stored secretory granule	peptide binding|serine-type endopeptidase activity			ovary(2)|skin(1)	3						TGAAGGAGTGCGAATGCTGGA	0.512													20	105					0	0	0.001882	0	0	
Unknown	0	broad.mit.edu	37	9	78969113	78969113	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:78969113C>T	uc004akc.1	+	9	1627	c.1407C>T	c.(1405-1407)TGC>TGT	p.C469C						Homo sapiens cDNA FLJ16215 fis, clone CTONG2025610, moderately similar to PC6B.																		CCCAGGAGTGCTGTGACTGCC	0.617													4	10					0	0	0.009096	0	0	
PRUNE2	158471	broad.mit.edu	37	9	79325763	79325763	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:79325763G>A	uc010mpk.2	-	8	1551	c.1427C>T	c.(1426-1428)GCG>GTG	p.A476V		NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	476					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						CTCCGCCACCGCCCCTTCAGG	0.592													4	34					0	0	0.009096	0	0	
VPS13A	23230	broad.mit.edu	37	9	79910752	79910752	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:79910752C>T	uc004akr.2	+	33	4062	c.3802C>T	c.(3802-3804)CGA>TGA	p.R1268*	VPS13A_uc004akp.3_Nonsense_Mutation_p.R1268*|VPS13A_uc004akq.3_Nonsense_Mutation_p.R1268*|VPS13A_uc004aks.2_Nonsense_Mutation_p.R1229*|VPS13A_uc010mpo.1_5'UTR	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	1268	TPR 4.				Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						GAGTGAAATGCGACTATACAG	0.343													18	46					0	0	0.006122	0	0	
TLE4	7091	broad.mit.edu	37	9	82227576	82227576	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:82227576G>T	uc004ald.2	+	5	1086	c.237G>T	c.(235-237)GAG>GAT	p.E79D	TLE4_uc004alc.2_Missense_Mutation_p.E86D|TLE4_uc010mpr.2_5'UTR|TLE4_uc004ale.2_5'UTR|TLE4_uc011lsq.1_Missense_Mutation_p.E79D|TLE4_uc010mps.2_Missense_Mutation_p.E79D|TLE4_uc004alf.2_Missense_Mutation_p.E24D	NM_007005	NP_008936	O60756	BCE1_HUMAN	transducin-like enhancer protein 4	Error:Variant_position_missing_in_O60756_after_alignment										lung(2)|ovary(1)|breast(1)|skin(1)	5						TGCAGGCAGAGATTGTCAAGA	0.388													16	75					3.8784e-16	4.22562e-16	0.001882	1	0	
UBQLN1	29979	broad.mit.edu	37	9	86276800	86276800	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:86276800C>T	uc004amv.2	-	11	2246	c.1672G>A	c.(1672-1674)GGA>AGA	p.G558R	UBQLN1_uc004amw.2_Missense_Mutation_p.G530R	NM_013438	NP_038466	Q9UMX0	UBQL1_HUMAN	ubiquilin 1 isoform 1	558	UBA.				apoptosis|regulation of protein ubiquitination|response to hypoxia	endoplasmic reticulum|nucleus|perinuclear region of cytoplasm|proteasome complex	kinase binding				0						TTCAAAAATCCCATTGCACTG	0.403													7	114					0	0	0.008291	0	0	
HNRNPK	3190	broad.mit.edu	37	9	86585141	86585141	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:86585141G>A	uc004ang.3	-	16	1521	c.1297C>T	c.(1297-1299)CGG>TGG	p.R433W	HNRNPK_uc011lsw.1_Missense_Mutation_p.R193W|HNRNPK_uc004and.3_Missense_Mutation_p.R193W|HNRNPK_uc004ank.3_Missense_Mutation_p.R432W|HNRNPK_uc004anf.3_Missense_Mutation_p.R433W|HNRNPK_uc004anh.3_Missense_Mutation_p.R409W|HNRNPK_uc011lsx.1_Missense_Mutation_p.R409W|HNRNPK_uc004ani.3_Missense_Mutation_p.R432W|HNRNPK_uc004anj.3_Missense_Mutation_p.R432W|HNRNPK_uc004ann.3_Missense_Mutation_p.R408W|HNRNPK_uc004anl.3_Missense_Mutation_p.R433W|HNRNPK_uc004anm.3_Missense_Mutation_p.R433W|uc004ano.1_5'Flank|MIR7-1_hsa-mir-7-1|MI0000263_5'Flank	NM_031262	NP_112552	P61978	HNRPK_HUMAN	heterogeneous nuclear ribonucleoprotein K	433	KH 3.				interspecies interaction between organisms|positive regulation of low-density lipoprotein particle receptor biosynthetic process|positive regulation of receptor-mediated endocytosis|regulation of lipid transport by positive regulation of transcription from an RNA polymerase II promoter|regulation of low-density lipoprotein particle clearance|signal transduction	catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nuclear chromatin|nucleoplasm	protein binding|RNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|single-stranded DNA binding			skin(1)	1						GTAATGATCCGATCTTCGGAT	0.413													4	75					0	0	0.000602	0	0	
DAPK1	1612	broad.mit.edu	37	9	90255318	90255318	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:90255318T>C	uc004apc.2	+	8	873	c.735T>C	c.(733-735)AGT>AGC	p.S245S	DAPK1_uc004ape.2_Silent_p.S245S|DAPK1_uc004apd.2_Silent_p.S245S|DAPK1_uc011ltg.1_Silent_p.S245S|DAPK1_uc011lth.1_5'UTR	NM_004938	NP_004929	P53355	DAPK1_HUMAN	death-associated protein kinase 1	245	Protein kinase.				apoptosis|induction of apoptosis by extracellular signals|intracellular protein kinase cascade	actin cytoskeleton|cytoplasm	ATP binding|calmodulin binding|protein serine/threonine kinase activity			ovary(1)|breast(1)	2						GTAATACCAGTGCCCTAGCCA	0.483									Chronic_Lymphocytic_Leukemia_Familial_Clustering_of				23	54					0	0	0.006320	0	0	
C9orf79	286234	broad.mit.edu	37	9	90502104	90502104	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:90502104A>T	uc004app.3	+	4	2737	c.2702A>T	c.(2701-2703)AAT>ATT	p.N901I	C9orf79_uc004apo.1_Missense_Mutation_p.N713I	NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	901				N -> S (in Ref. 1; BAC86315).		integral to membrane				ovary(3)	3						CGTCCTCAGAATGGTCCAGGA	0.602													13	25					0	0	0.001368	0	0	
FAM75C1	441452	broad.mit.edu	37	9	90534188	90534188	+	Missense_Mutation	SNP	C	T	T	rs138369848		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:90534188C>T	uc010mqi.2	+	2	237	c.208C>T	c.(208-210)CGT>TGT	p.R70C	FAM75C1_uc004apq.3_Missense_Mutation_p.R53C	NM_001145124	NP_001138596			family with sequence similarity 75, member C1												0						TGTCTCCCAGCGTCATCTTGT	0.612													18	57					0	0	0.008871	0	0	
CDK20	23552	broad.mit.edu	37	9	90585726	90585726	+	Silent	SNP	G	A	A	rs150818250	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:90585726G>A	uc004apr.2	-	4	771	c.465C>T	c.(463-465)GAC>GAT	p.D155D	CDK20_uc004aps.2_Silent_p.D155D|CDK20_uc004apt.2_Silent_p.D168D|CDK20_uc004apu.2_Silent_p.D155D	NM_001039803	NP_001034892	Q8IZL9	CDK20_HUMAN	cell cycle related kinase isoform 3	155	Protein kinase.				cell division|multicellular organismal development	cilium|mitochondrion|nucleus	ATP binding|cyclin-dependent protein kinase activity			skin(1)	1						GGCGGCTGCCGTCTGGGGAAA	0.592													5	11					0	0	0.000602	0	0	
SHC3	53358	broad.mit.edu	37	9	91628425	91628425	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:91628425G>A	uc004aqg.2	-	12	2029	c.1722C>T	c.(1720-1722)AGC>AGT	p.S574S		NM_016848	NP_058544	Q92529	SHC3_HUMAN	src homology 2 domain-containing transforming	574	SH2.				central nervous system development|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	protein binding|signal transducer activity			lung(3)|skin(1)	4						CAATGGGCAGGCTGCTTTCTA	0.542													14	35					0	0	0.004990	0	0	
SEMA4D	10507	broad.mit.edu	37	9	91994281	91994281	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:91994281C>T	uc004aqo.1	-	18	2499	c.1927G>A	c.(1927-1929)GTC>ATC	p.V643I	SEMA4D_uc011ltm.1_Intron|SEMA4D_uc011ltn.1_Intron|SEMA4D_uc011lto.1_Intron|SEMA4D_uc004aqp.1_Missense_Mutation_p.V641I	NM_006378	NP_006369	Q92854	SEM4D_HUMAN	semaphorin 4D isoform 1	643	Extracellular (Potential).				anti-apoptosis|axon guidance|cell adhesion|immune response	integral to membrane|plasma membrane	receptor activity|receptor binding			ovary(1)|pancreas(1)	2						ACTTCCAGGACGTGCTTGGCG	0.527													6	224					0	0	0.001984	0	0	
AUH	549	broad.mit.edu	37	9	93983211	93983211	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:93983211G>A	uc004arf.3	-	7	754	c.719C>T	c.(718-720)GCG>GTG	p.A240V	AUH_uc004arg.3_Missense_Mutation_p.A211V	NM_001698	NP_001689	Q13825	AUHM_HUMAN	AU RNA binding protein/enoyl-Coenzyme A	240			A -> V (in MGA1).		branched chain family amino acid catabolic process|mRNA catabolic process	mitochondrial matrix	enoyl-CoA hydratase activity|methylglutaconyl-CoA hydratase activity|mRNA 3'-UTR binding				0						GAGGACTCGCGCAGAGAATAT	0.557													24	49					0	0	0.003954	0	0	
ROR2	4920	broad.mit.edu	37	9	94487389	94487389	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:94487389C>T	uc004arj.1	-	9	1586	c.1387G>A	c.(1387-1389)GCC>ACC	p.A463T	ROR2_uc004ari.1_Missense_Mutation_p.A323T	NM_004560	NP_004551	Q01974	ROR2_HUMAN	receptor tyrosine kinase-like orphan receptor 2	463	Cytoplasmic (Potential).				negative regulation of cell proliferation|positive regulation of cell migration|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			lung(8)|central_nervous_system(5)|ovary(3)|large_intestine(2)|stomach(1)|breast(1)	20						TTGAGTTTGGCCTGTCAAGAA	0.587													9	206					0	0	0.006214	0	0	
CENPP	401541	broad.mit.edu	37	9	95142122	95142122	+	Missense_Mutation	SNP	G	A	A	rs112987350		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:95142122G>A	uc004arz.2	+	5	1085	c.545G>A	c.(544-546)CGC>CAC	p.R182H	CENPP_uc010mqx.2_Missense_Mutation_p.R70H|CENPP_uc004ary.1_Missense_Mutation_p.R182H	NM_001012267	NP_001012267	Q6IPU0	CENPP_HUMAN	centromere protein P	182					CenH3-containing nucleosome assembly at centromere|mitotic prometaphase	chromosome, centromeric region|cytosol|nucleoplasm				ovary(2)	2						TATCGTAAGCGCACGTTTAAA	0.343													5	73					0	0	0.001168	0	0	
BICD2	23299	broad.mit.edu	37	9	95481525	95481525	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:95481525C>T	uc004aso.1	-	5	1459	c.1402G>A	c.(1402-1404)GCC>ACC	p.A468T	BICD2_uc004asp.1_Missense_Mutation_p.A468T	NM_015250	NP_056065	Q8TD16	BICD2_HUMAN	bicaudal D homolog 2 isoform 2	468	Potential.				microtubule anchoring at microtubule organizing center|minus-end-directed organelle transport along microtubule	cytoplasmic vesicle|cytoskeleton|Golgi apparatus|plasma membrane	Rab GTPase binding			skin(1)	1						TTCTCCTCGGCGTGCTGGGCC	0.682													10	24					0	0	0.006214	0	0	
ZNF484	83744	broad.mit.edu	37	9	95610226	95610226	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:95610226G>A	uc004asu.1	-	5	992	c.843C>T	c.(841-843)TGC>TGT	p.C281C	ANKRD19_uc004asr.3_Intron|ZNF484_uc011lub.1_Silent_p.C283C|ZNF484_uc010mrb.1_Silent_p.C245C|ZNF484_uc004asv.1_Silent_p.C245C	NM_031486	NP_113674	Q5JVG2	ZN484_HUMAN	zinc finger protein 484 isoform a	281	C2H2-type 2; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CACATTCATGGCATTCATGCT	0.433													6	82					0	0	0.001168	0	0	
WNK2	65268	broad.mit.edu	37	9	96009888	96009888	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:96009888G>A	uc004ati.1	+	7	1606	c.1606G>A	c.(1606-1608)GTG>ATG	p.V536M	WNK2_uc011lud.1_Missense_Mutation_p.V536M|WNK2_uc004atj.2_Missense_Mutation_p.V536M|WNK2_uc004atk.2_Missense_Mutation_p.V173M|WNK2_uc010mrc.1_Missense_Mutation_p.V536M|WNK2_uc010mrd.1_Missense_Mutation_p.V173M	NM_006648	NP_006639	Q9Y3S1	WNK2_HUMAN	WNK lysine deficient protein kinase 2	536					intracellular protein kinase cascade		ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|stomach(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)|breast(1)	12						CCGTGACCGCGTGGCCTTGAT	0.622													4	7					0	0	0.001984	0	0	
WNK2	65268	broad.mit.edu	37	9	96021599	96021599	+	Silent	SNP	C	T	T	rs147646744	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:96021599C>T	uc004ati.1	+	11	2769	c.2769C>T	c.(2767-2769)GAC>GAT	p.D923D	WNK2_uc011lud.1_Silent_p.D923D|WNK2_uc004atj.2_Silent_p.D923D|WNK2_uc004atk.2_Silent_p.D560D|WNK2_uc010mrc.1_Silent_p.D871D	NM_006648	NP_006639	Q9Y3S1	WNK2_HUMAN	WNK lysine deficient protein kinase 2	923					intracellular protein kinase cascade		ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|stomach(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)|breast(1)	12						CGCCTACTGACGTCCCTCCTT	0.667													6	12					0	0	0.001168	0	0	
C9orf129	445577	broad.mit.edu	37	9	96081439	96081439	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:96081439C>T	uc010mre.2	-	4	747	c.383G>A	c.(382-384)GGA>GAA	p.G128E	WNK2_uc011lud.1_3'UTR|WNK2_uc004atj.2_Intron|WNK2_uc004atk.2_3'UTR	NM_001098808	NP_001092278	Q5T035	CI129_HUMAN	hypothetical protein LOC445577	128										ovary(1)	1						GGCACGGAATCCCCAATAGAT	0.463													17	52					0	0	0.007413	0	0	
FAM120A	23196	broad.mit.edu	37	9	96324555	96324555	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:96324555G>A	uc004atw.2	+	17	3039	c.3014G>A	c.(3013-3015)GGC>GAC	p.G1005D	FAM120A_uc004aty.2_Missense_Mutation_p.G786D|FAM120A_uc004atz.2_Missense_Mutation_p.G653D|FAM120A_uc010mrg.2_Missense_Mutation_p.G272D|FAM120A_uc004aua.1_5'Flank	NM_014612	NP_055427	Q9NZB2	F120A_HUMAN	oxidative stress-associated Src activator	1005	RNA binding.					cytoplasm|plasma membrane	RNA binding				0						AGGTACTATGGCAGAGGTTAC	0.438													15	35					0	0	0.006122	0	0	
PHF2	5253	broad.mit.edu	37	9	96415473	96415473	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:96415473C>T	uc004aub.2	+	6	762	c.615C>T	c.(613-615)TTC>TTT	p.F205F	PHF2_uc011lug.1_Silent_p.F88F	NM_005392	NP_005383	O75151	PHF2_HUMAN	PHD finger protein 2	205	JmjC.				liver development|negative regulation of chromatin silencing at rDNA|transcription, DNA-dependent	nucleolus	histone demethylase activity (H3-K9 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1		Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;9.11e-28)		TGTCCAGCTTCGTGGAGCCAC	0.502													10	40					0	0	0.003163	0	0	
ZNF510	22869	broad.mit.edu	37	9	99522503	99522503	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:99522503G>A	uc004awn.1	-	6	798	c.609C>T	c.(607-609)TGC>TGT	p.C203C	ZNF510_uc004awo.1_Silent_p.C203C	NM_014930	NP_055745	Q9Y2H8	ZN510_HUMAN	zinc finger protein 510	203					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Acute lymphoblastic leukemia(62;0.0527)				ATACATTACCGCAACCTATTT	0.294													6	57					0	0	0.001984	0	0	
ZNF322B	387328	broad.mit.edu	37	9	99961412	99961412	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:99961412T>C	uc004axd.1	-	1	499	c.382A>G	c.(382-384)ACA>GCA	p.T128A	uc004axb.2_5'Flank|ZNF322B_uc004axc.1_5'Flank|uc010msl.1_Intron	NM_199005	NP_945356			zinc finger protein 322B												0		Acute lymphoblastic leukemia(62;0.158)				ATGTCACATGTATAGAATTTT	0.403													6	118					0	0	0.003080	0	0	
TDRD7	23424	broad.mit.edu	37	9	100245401	100245401	+	Missense_Mutation	SNP	G	A	A	rs142868591		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:100245401G>A	uc004axj.2	+	15	2908	c.2683G>A	c.(2683-2685)GCT>ACT	p.A895T	TDRD7_uc011lux.1_Missense_Mutation_p.A821T|TDRD7_uc010msp.1_Missense_Mutation_p.A147T|TDRD7_uc011luy.1_Missense_Mutation_p.A215T	NM_014290	NP_055105	Q8NHU6	TDRD7_HUMAN	tudor domain containing 7	895	Interacts with CDK17 (By similarity).|Interacts with CABLES1 (By similarity).				lens fiber cell differentiation|lens morphogenesis in camera-type eye|posttranscriptional regulation of gene expression|spermatogenesis	chromatoid body	mRNA binding			ovary(2)|pancreas(1)	3		Acute lymphoblastic leukemia(62;0.158)				CCATACGAGCGCTTTCTCCAC	0.507													11	28					0	0	0.001368	0	0	
TSTD2	158427	broad.mit.edu	37	9	100365028	100365028	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:100365028C>T	uc004axn.2	-	10	1762	c.1274G>A	c.(1273-1275)CGC>CAC	p.R425H	TSTD2_uc004axo.2_Missense_Mutation_p.R199H	NM_139246	NP_640339	Q5T7W7	TSTD2_HUMAN	thiosulfate sulfurtransferase (rhodanese)-like	425										ovary(2)	2						CTGGTCCCAGCGGGCTCCACA	0.517													5	45					0	0	0.000602	0	0	
NCBP1	4686	broad.mit.edu	37	9	100420938	100420938	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:100420938C>T	uc004axq.2	+	15	1849	c.1390C>T	c.(1390-1392)CGT>TGT	p.R464C		NM_002486	NP_002477	Q09161	NCBP1_HUMAN	nuclear cap binding protein subunit 1, 80kDa	464					gene silencing by RNA|histone mRNA metabolic process|mRNA 3'-end processing|mRNA capping|mRNA cleavage|mRNA export from nucleus|ncRNA metabolic process|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|positive regulation of mRNA 3'-end processing|positive regulation of viral transcription|regulation of translational initiation|spliceosomal snRNP assembly|termination of RNA polymerase II transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	cytosol|mRNA cap binding complex|nucleoplasm|ribonucleoprotein complex	protein binding|RNA cap binding			central_nervous_system(1)	1		Acute lymphoblastic leukemia(62;0.158)				TTACCATCAGCGTATATTAGA	0.393													12	43					0	0	0.001855	0	0	
NCBP1	4686	broad.mit.edu	37	9	100431913	100431913	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:100431913C>T	uc004axq.2	+	22	2643	c.2184C>T	c.(2182-2184)TGC>TGT	p.C728C		NM_002486	NP_002477	Q09161	NCBP1_HUMAN	nuclear cap binding protein subunit 1, 80kDa	728					gene silencing by RNA|histone mRNA metabolic process|mRNA 3'-end processing|mRNA capping|mRNA cleavage|mRNA export from nucleus|ncRNA metabolic process|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|positive regulation of mRNA 3'-end processing|positive regulation of viral transcription|regulation of translational initiation|spliceosomal snRNP assembly|termination of RNA polymerase II transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	cytosol|mRNA cap binding complex|nucleoplasm|ribonucleoprotein complex	protein binding|RNA cap binding			central_nervous_system(1)	1		Acute lymphoblastic leukemia(62;0.158)				TAGTACGATGCGAAACTGATG	0.418													19	52					0	0	0.001882	0	0	
C9orf156	51531	broad.mit.edu	37	9	100672390	100672390	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:100672390C>T	uc004axv.1	-	4	995	c.918G>A	c.(916-918)CAG>CAA	p.Q306Q	C9orf156_uc004axw.1_Silent_p.Q203Q|C9orf156_uc004axx.1_Silent_p.Q160Q|C9orf156_uc010msq.1_Silent_p.Q203Q	NM_016481	NP_057565	Q9BU70	NAP1_HUMAN	Nef associated protein 1	306					interspecies interaction between organisms		hydrolase activity				0		Acute lymphoblastic leukemia(62;0.158)				GGGCCATGGGCTGTGTCTCTG	0.567													7	29					0	0	0.004482	0	0	
GABBR2	9568	broad.mit.edu	37	9	101340263	101340263	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:101340263A>G	uc004ays.2	-	2	569	c.413T>C	c.(412-414)GTC>GCC	p.V138A		NM_005458	NP_005449	O75899	GABR2_HUMAN	G protein-coupled receptor 51 precursor	138	Extracellular (Potential).				negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(2)|skin(2)	4		Acute lymphoblastic leukemia(62;0.0527)			Baclofen(DB00181)	GATGGATGTGACGGATGGACA	0.517													5	68					0	0	0.000602	0	0	
INVS	27130	broad.mit.edu	37	9	103054969	103054969	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:103054969C>T	uc004bap.1	+	14	2642	c.2430C>T	c.(2428-2430)CGC>CGT	p.R810R	INVS_uc011lve.1_Silent_p.R714R|INVS_uc004bao.1_Intron|INVS_uc004baq.1_Intron|INVS_uc004bar.1_Silent_p.R714R|INVS_uc010mtb.1_Silent_p.R484R	NM_014425	NP_055240	Q9Y283	INVS_HUMAN	inversin isoform a	810					negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasm|membrane|microtubule|nucleus|spindle	calmodulin binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.056)				GTTCTAGCCGCCCTGGCAGTG	0.617													8	25					0	0	0.003080	0	0	
TEX10	54881	broad.mit.edu	37	9	103082626	103082626	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:103082626A>G	uc004bas.2	-	11	2338	c.2123T>C	c.(2122-2124)GTC>GCC	p.V708A	TEX10_uc011lvf.1_Missense_Mutation_p.V547A|TEX10_uc011lvg.1_Missense_Mutation_p.V711A	NM_017746	NP_060216	Q9NXF1	TEX10_HUMAN	testis expressed 10 isoform 1	708						integral to membrane|MLL1 complex|nuclear membrane|nucleolus	binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(62;0.0527)		OV - Ovarian serous cystadenocarcinoma(323;0.157)		TGTCTGGATGACATGAGGAAC	0.383													4	44					0	0	0.009096	0	0	
LPPR1	54886	broad.mit.edu	37	9	104079735	104079735	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:104079735C>A	uc004bbb.2	+	7	1301	c.902C>A	c.(901-903)GCT>GAT	p.A301D	LPPR1_uc011lvi.1_Missense_Mutation_p.A277D|LPPR1_uc004bbc.2_Missense_Mutation_p.A301D|LPPR1_uc010mtc.2_Missense_Mutation_p.A285D	NM_207299	NP_997182	Q8TBJ4	LPPR1_HUMAN	plasticity related gene 3	301						integral to membrane	catalytic activity				0						CCCCTAATGGCTTTCCCAAGG	0.488													35	100					3.76114e-14	4.08591e-14	0.004289	1	0	
BAAT	570	broad.mit.edu	37	9	104125184	104125184	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:104125184G>A	uc010mtd.2	-	4	892	c.783C>T	c.(781-783)AAC>AAT	p.N261N	BAAT_uc004bbd.3_Silent_p.N261N	NM_001127610	NP_001121082	Q14032	BAAT_HUMAN	bile acid Coenzyme A: amino acid	261					acyl-CoA metabolic process|bile acid and bile salt transport|bile acid biosynthetic process|digestion|fatty acid metabolic process|glycine metabolic process	cytosol|peroxisomal matrix	carboxylesterase activity|glycine N-choloyltransferase activity|N-acyltransferase activity|palmitoyl-CoA hydrolase activity			ovary(1)|lung(1)|skin(1)	3		Acute lymphoblastic leukemia(62;0.0559)			Glycine(DB00145)	CAAAAGGAAAGTTGGTCCCAT	0.453													9	130					0	0	0.006214	0	0	
RNF20	56254	broad.mit.edu	37	9	104302555	104302555	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:104302555C>T	uc004bbn.2	+	3	290	c.200C>T	c.(199-201)GCC>GTC	p.A67V		NM_019592	NP_062538	Q5VTR2	BRE1A_HUMAN	ring finger protein 20	67	Potential.				histone H2B ubiquitination|histone monoubiquitination|negative regulation of cell migration|positive regulation of transcription, DNA-dependent|protein polyubiquitination|ubiquitin-dependent protein catabolic process	nucleolus|ubiquitin ligase complex	histone binding|p53 binding|transcription coactivator activity|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(1)|breast(1)|kidney(1)|skin(1)	8		all_hematologic(171;8.99e-06)|Acute lymphoblastic leukemia(62;0.000365)|Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;2.88e-19)|STAD - Stomach adenocarcinoma(157;0.00311)		CAGCGGCAGGCCATTGAAGAT	0.463													16	44					0	0	0.004990	0	0	
TMEM38B	55151	broad.mit.edu	37	9	108457045	108457045	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:108457045G>A	uc004bcu.1	+	1	221	c.104G>A	c.(103-105)CGT>CAT	p.R35H	TMEM38B_uc010mtn.1_Missense_Mutation_p.R35H	NM_018112	NP_060582	Q9NVV0	TM38B_HUMAN	transmembrane protein 38B	35	Lumenal (Potential).					integral to membrane|nuclear membrane|sarcoplasmic reticulum membrane	potassium channel activity			ovary(1)|skin(1)	2						GCGGTGAAACGTCAGCCGGGT	0.532													5	28					0	0	0.001984	0	0	
ZNF462	58499	broad.mit.edu	37	9	109691644	109691644	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:109691644G>A	uc004bcz.2	+	3	5740	c.5451G>A	c.(5449-5451)AAG>AAA	p.K1817K	ZNF462_uc010mto.2_Silent_p.K1665K|ZNF462_uc004bda.2_Silent_p.K1665K	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	1817					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						AGCATGAGAAGCCCACACTGA	0.547													6	83					0	0	0.001984	0	0	
IKBKAP	8518	broad.mit.edu	37	9	111659242	111659242	+	Missense_Mutation	SNP	C	T	T	rs137983175		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:111659242C>T	uc004bdm.3	-	24	3098	c.2578G>A	c.(2578-2580)GAG>AAG	p.E860K	IKBKAP_uc004bdl.2_Missense_Mutation_p.E511K|IKBKAP_uc011lwc.1_Missense_Mutation_p.E746K|IKBKAP_uc010mtq.2_Missense_Mutation_p.E511K	NM_003640	NP_003631	O95163	ELP1_HUMAN	inhibitor of kappa light polypeptide gene	860					immune response|protein complex assembly|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|DNA-directed RNA polymerase II, holoenzyme|nucleolus|transcription elongation factor complex	phosphorylase kinase regulator activity|protein binding|signal transducer activity			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	7						CCTTGAAGCTCGTGTACTTTT	0.448													30	72					0	0	0.009535	0	0	
EPB41L4B	54566	broad.mit.edu	37	9	112042125	112042125	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:112042125A>C	uc004bdz.1	-	2	678	c.383T>G	c.(382-384)CTC>CGC	p.L128R	EPB41L4B_uc004bea.2_Missense_Mutation_p.L128R	NM_019114	NP_061987	Q9H329	E41LB_HUMAN	erythrocyte membrane protein band 4.1 like 4B	128	FERM.					cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)|skin(1)	3						GAGGAACTGGAGGCCAAAGTA	0.443													16	52					0	0	0.003954	0	0	
PALM2-AKAP2	445815	broad.mit.edu	37	9	112899061	112899061	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:112899061C>T	uc004bei.2	+	9	2125	c.1933C>T	c.(1933-1935)CGT>TGT	p.R645C	PALM2-AKAP2_uc004bek.3_Missense_Mutation_p.R413C|PALM2-AKAP2_uc004bej.3_Missense_Mutation_p.R413C|PALM2-AKAP2_uc004bel.1_Missense_Mutation_p.R223C|AKAP2_uc011lwi.1_Missense_Mutation_p.R271C|AKAP2_uc004bem.2_Missense_Mutation_p.R271C|PALM2-AKAP2_uc010mtw.1_Missense_Mutation_p.R231C|AKAP2_uc011lwj.1_Missense_Mutation_p.R182C|PALM2-AKAP2_uc004ben.2_Missense_Mutation_p.R182C	NM_001136562	NP_001130034	Q9Y2D5	AKAP2_HUMAN	A kinase (PRKA) anchor protein 2 isoform 2	182							enzyme binding			ovary(3)|central_nervous_system(2)|skin(1)	6						GTTTGAGCTGCGTGCCTTCCA	0.517													19	51					0	0	0.007413	0	0	
SVEP1	79987	broad.mit.edu	37	9	113168502	113168502	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:113168502C>T	uc010mtz.2	-	38	9715	c.9378G>A	c.(9376-9378)CCG>CCA	p.P3126P	SVEP1_uc010mty.2_Silent_p.P1052P	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	3126	Sushi 29.				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						TGGCGACAGACGGTGGGGACC	0.527													6	93					0	0	0.006214	0	0	
SVEP1	79987	broad.mit.edu	37	9	113241982	113241982	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:113241982G>A	uc010mtz.2	-	13	2757	c.2420C>T	c.(2419-2421)GCT>GTT	p.A807V	SVEP1_uc010mua.1_Missense_Mutation_p.A807V|SVEP1_uc004beu.2_Missense_Mutation_p.A807V	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	807					cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding	p.A807G(1)		ovary(7)	7						ATCACAACGAGCTGCTTTGTA	0.383													6	219					0	0	0.001984	0	0	
LPAR1	1902	broad.mit.edu	37	9	113637839	113637839	+	Silent	SNP	G	A	A	rs61753623	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:113637839G>A	uc004bfa.2	-	5	1212	c.957C>T	c.(955-957)AGC>AGT	p.S319S	LPAR1_uc011lwm.1_Silent_p.S320S|LPAR1_uc004bfb.2_Silent_p.S319S|LPAR1_uc004bfc.2_Silent_p.S319S|LPAR1_uc011lwn.1_Silent_p.S301S|LPAR1_uc011lwo.1_Silent_p.S320S|LPAR1_uc010mub.2_Silent_p.S319S	NM_057159	NP_476500	Q92633	LPAR1_HUMAN	lysophosphatidic acid receptor 1	319	Cytoplasmic (Potential).				positive regulation of I-kappaB kinase/NF-kappaB cascade	cell surface|integral to plasma membrane				ovary(2)	2						TAAAGGTGGCGCTCATTTCTT	0.552													23	54					0	0	0.007291	0	0	
LPAR1	1902	broad.mit.edu	37	9	113704425	113704425	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:113704425C>A	uc004bfa.2	-	4	324	c.69G>T	c.(67-69)CAG>CAT	p.Q23H	LPAR1_uc011lwm.1_Missense_Mutation_p.Q24H|LPAR1_uc004bfb.2_Missense_Mutation_p.Q23H|LPAR1_uc004bfc.2_Missense_Mutation_p.Q23H|LPAR1_uc011lwn.1_Missense_Mutation_p.Q5H|LPAR1_uc011lwo.1_Missense_Mutation_p.Q24H|LPAR1_uc010mub.2_Missense_Mutation_p.Q23H	NM_057159	NP_476500	Q92633	LPAR1_HUMAN	lysophosphatidic acid receptor 1	23	Extracellular (Potential).				positive regulation of I-kappaB kinase/NF-kappaB cascade	cell surface|integral to plasma membrane				ovary(2)	2						TGTAGAAGCACTGTGGTTCAT	0.403													24	74					1.10513e-12	1.19757e-12	0.002299	1	0	
KIAA1958	158405	broad.mit.edu	37	9	115336875	115336875	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:115336875G>A	uc004bgf.1	+	2	690	c.515G>A	c.(514-516)CGC>CAC	p.R172H	KIAA1958_uc011lwx.1_Missense_Mutation_p.R172H	NM_133465	NP_597722	Q8N8K9	K1958_HUMAN	hypothetical protein LOC158405	172										skin(1)	1						AGCATTGCTCGCAAAAGACCT	0.458													11	104					0	0	0.008291	0	0	
FKBP15	23307	broad.mit.edu	37	9	115959248	115959248	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:115959248C>T	uc004bgs.2	-	9	946	c.828G>A	c.(826-828)ACG>ACA	p.T276T	FKBP15_uc010muu.1_Silent_p.T340T|FKBP15_uc011lxd.1_Silent_p.T208T|FKBP15_uc010mut.1_Silent_p.T144T|FKBP15_uc004bgt.2_Silent_p.T276T	NM_015258	NP_056073	Q5T1M5	FKB15_HUMAN	FK506 binding protein 15, 133kDa	276	PPIase FKBP-type.				endocytosis|protein folding	axon|early endosome	actin binding			ovary(3)	3						GGATCGAGTCCGTTGCTTGAG	0.498													4	78					0	0	0.001168	0	0	
PRPF4	9128	broad.mit.edu	37	9	116053015	116053015	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:116053015G>T	uc004bgx.2	+	12	1234	c.1184G>T	c.(1183-1185)CGC>CTC	p.R395L	PRPF4_uc004bgy.2_Missense_Mutation_p.R394L	NM_004697	NP_004688	O43172	PRP4_HUMAN	PRP4 pre-mRNA processing factor 4 homolog	395	WD 4.					Cajal body|nuclear speck|spliceosomal complex|U4/U6 snRNP	protein binding			ovary(2)|pancreas(1)	3						TGGGACCTACGCACAGGACGT	0.423													17	65					1.55795e-14	1.69424e-14	0.001882	1	0	
WDR31	114987	broad.mit.edu	37	9	116080824	116080824	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:116080824C>T	uc004bhe.2	-	10	1126	c.874G>A	c.(874-876)GCC>ACC	p.A292T	uc004bhb.2_5'Flank|WDR31_uc004bhc.2_Missense_Mutation_p.A291T|WDR31_uc004bhd.2_Missense_Mutation_p.A167T|WDR31_uc004bhf.2_RNA	NM_001012361	NP_001012361	Q8NA23	WDR31_HUMAN	WD repeat domain 31 isoform 1	292	WD 5.										0						GGCATCAAGGCCAATGCTCTT	0.448													26	100					0	0	0.005443	0	0	
BSPRY	54836	broad.mit.edu	37	9	116130628	116130628	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:116130628A>G	uc004bhg.3	+	5	695	c.647A>G	c.(646-648)CAA>CGA	p.Q216R	BSPRY_uc010muw.2_Intron	NM_017688	NP_060158	Q5W0U4	BSPRY_HUMAN	B-box and SPRY domain containing	216	B30.2/SPRY.				calcium ion transport	cytoplasm|membrane	zinc ion binding			breast(1)	1						CTACTGACCCAACTCTGGGCA	0.527													20	62					0	0	0.004656	0	0	
ZNF618	114991	broad.mit.edu	37	9	116812207	116812207	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:116812207C>T	uc004bid.2	+	15	2724	c.2625C>T	c.(2623-2625)TAC>TAT	p.Y875Y	ZNF618_uc004bic.2_Silent_p.Y782Y|ZNF618_uc011lxi.1_Silent_p.Y842Y|ZNF618_uc011lxj.1_Silent_p.Y843Y|ZNF618_uc010mvb.2_Silent_p.Y465Y	NM_133374	NP_588615	Q5T7W0	ZN618_HUMAN	zinc finger protein 618	875					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ATGAAGTGTACGATTACCTGC	0.577													5	60					0	0	0.000602	0	0	
COL27A1	85301	broad.mit.edu	37	9	116930298	116930298	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:116930298C>T	uc011lxl.1	+	3	463	c.463C>T	c.(463-465)CGC>TGC	p.R155C	COL27A1_uc004bii.2_RNA|COL27A1_uc010mvd.1_Missense_Mutation_p.R5C	NM_032888	NP_116277	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1 precursor	155	Laminin G-like.|TSP N-terminal.				cell adhesion		extracellular matrix structural constituent			ovary(3)|skin(1)	4						GCACGACGGGCGCTGGCACCA	0.697													3	9					0	0	0.004672	0	0	
COL27A1	85301	broad.mit.edu	37	9	117070050	117070050	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:117070050G>A	uc011lxl.1	+	59	5209	c.5209G>A	c.(5209-5211)GCC>ACC	p.A1737T	COL27A1_uc004bii.2_RNA|COL27A1_uc011lxn.1_Missense_Mutation_p.A52T	NM_032888	NP_116277	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1 precursor	1737	Fibrillar collagen NC1.				cell adhesion		extracellular matrix structural constituent			ovary(3)|skin(1)	4						GCCCATCACGGCCTCCAAGGT	0.532													19	32					0	0	0.008871	0	0	
DFNB31	25861	broad.mit.edu	37	9	117188608	117188608	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:117188608C>T	uc004biz.3	-	4	1698	c.1049G>A	c.(1048-1050)CGG>CAG	p.R350Q	DFNB31_uc004bix.2_5'Flank|DFNB31_uc004biy.3_5'UTR|DFNB31_uc004bja.3_Missense_Mutation_p.R350Q	NM_015404	NP_056219	Q9P202	WHRN_HUMAN	CASK-interacting protein CIP98 isoform 1	350	PDZ 2.				inner ear receptor stereocilium organization|retina homeostasis|sensory perception of light stimulus|sensory perception of sound	cytoplasm|growth cone|stereocilium				ovary(4)|central_nervous_system(1)|pancreas(1)	6						GATGAGGTGCCGAGATGACTT	0.587													4	35					0	0	0.000602	0	0	
TNC	3371	broad.mit.edu	37	9	117804613	117804613	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:117804613G>A	uc004bjj.3	-	18	5495	c.5133C>T	c.(5131-5133)GGC>GGT	p.G1711G	TNC_uc010mvf.2_Silent_p.G1438G	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	1711	Fibronectin type-III 13.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						CCTTTGGGGAGCCCATGGCTG	0.463													15	44					0	0	0.004990	0	0	
PAPPA	5069	broad.mit.edu	37	9	119124887	119124887	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:119124887T>C	uc004bjn.2	+	18	4745	c.4364T>C	c.(4363-4365)GTC>GCC	p.V1455A	PAPPA_uc011lxq.1_Missense_Mutation_p.V830A	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	1455	Sushi 4.				cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						GGGAGCAATGTCATTCATTGC	0.488													23	65					0	0	0.003330	0	0	
ASTN2	23245	broad.mit.edu	37	9	119488134	119488134	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:119488134C>T	uc004bjs.1	-	16	2823	c.2722G>A	c.(2722-2724)GCC>ACC	p.A908T	ASTN2_uc004bjr.1_Missense_Mutation_p.A904T|ASTN2_uc004bjt.1_Missense_Mutation_p.A857T	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	908	Extracellular (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						CCATAGAGGGCCTCTGCGATG	0.557													5	109					0	0	0.001168	0	0	
ASTN2	23245	broad.mit.edu	37	9	119976705	119976705	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:119976705C>T	uc004bjs.1	-	3	1048	c.947G>A	c.(946-948)AGC>AAC	p.S316N	ASTN2_uc004bjr.1_Missense_Mutation_p.S316N|ASTN2_uc004bjt.1_Missense_Mutation_p.S316N	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	316	Cytoplasmic (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						GGTCACCTGGCTGCCAAACTC	0.577													23	66					0	0	0.002780	0	0	
TLR4	7099	broad.mit.edu	37	9	120476537	120476537	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:120476537G>T	uc004bjz.2	+	3	2422	c.2131G>T	c.(2131-2133)GAC>TAC	p.D711Y	TLR4_uc004bka.2_Missense_Mutation_p.D671Y|TLR4_uc004bkb.2_Missense_Mutation_p.D511Y	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	711	Cytoplasmic (Potential).|TIR.			D->K: Abolishes LPS-response.	activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						TCACTACAGAGACTTTATTCC	0.468													19	49					7.41877e-09	7.94206e-09	0.001882	1	0	
CDK5RAP2	55755	broad.mit.edu	37	9	123220813	123220813	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:123220813C>T	uc004bkf.2	-	20	2471	c.2290G>A	c.(2290-2292)GCA>ACA	p.A764T	CDK5RAP2_uc004bke.2_Missense_Mutation_p.A49T|CDK5RAP2_uc004bkg.2_Missense_Mutation_p.A764T|CDK5RAP2_uc011lxw.1_Missense_Mutation_p.A29T|CDK5RAP2_uc011lxx.1_RNA|CDK5RAP2_uc011lxy.1_RNA|CDK5RAP2_uc011lxz.1_Missense_Mutation_p.A29T|CDK5RAP2_uc011lya.1_Missense_Mutation_p.A29T|CDK5RAP2_uc004bkh.1_Intron|CDK5RAP2_uc004bki.2_Missense_Mutation_p.A531T	NM_018249	NP_060719	Q96SN8	CK5P2_HUMAN	CDK5 regulatory subunit associated protein 2	764					brain development|centrosome organization|chromosome segregation|G2/M transition of mitotic cell cycle|microtubule bundle formation|negative regulation of centriole replication|positive regulation of transcription, DNA-dependent|regulation of neuron differentiation|regulation of spindle checkpoint	cytosol|Golgi apparatus|microtubule|pericentriolar material|perinuclear region of cytoplasm|spindle pole	calmodulin binding|microtubule binding|neuronal Cdc2-like kinase binding|transcription regulatory region DNA binding			ovary(2)|lung(1)|skin(1)	4						CAGCCAGGTGCGTGGGCCCCA	0.458													21	60					0	0	0.010504	0	0	
CDK5RAP2	55755	broad.mit.edu	37	9	123308012	123308012	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:123308012C>A	uc004bkf.2	-	5	544	c.363G>T	c.(361-363)GAG>GAT	p.E121D	CDK5RAP2_uc004bkg.2_Missense_Mutation_p.E121D|CDK5RAP2_uc011lxw.1_5'UTR|CDK5RAP2_uc011lxx.1_RNA|CDK5RAP2_uc011lxy.1_RNA|CDK5RAP2_uc011lxz.1_5'UTR|CDK5RAP2_uc011lya.1_5'UTR|CDK5RAP2_uc004bkh.1_Missense_Mutation_p.E121D	NM_018249	NP_060719	Q96SN8	CK5P2_HUMAN	CDK5 regulatory subunit associated protein 2	121					brain development|centrosome organization|chromosome segregation|G2/M transition of mitotic cell cycle|microtubule bundle formation|negative regulation of centriole replication|positive regulation of transcription, DNA-dependent|regulation of neuron differentiation|regulation of spindle checkpoint	cytosol|Golgi apparatus|microtubule|pericentriolar material|perinuclear region of cytoplasm|spindle pole	calmodulin binding|microtubule binding|neuronal Cdc2-like kinase binding|transcription regulatory region DNA binding			ovary(2)|lung(1)|skin(1)	4						TGAGCAGCTGCTCTCTCTCCT	0.433													38	83					1.8453e-21	2.02316e-21	0.002522	1	0	
PSMD5	5711	broad.mit.edu	37	9	123594201	123594201	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:123594201G>A	uc004bko.2	-	3	360	c.341C>T	c.(340-342)TCT>TTT	p.S114F	PSMD5_uc011lye.1_Missense_Mutation_p.S114F	NM_005047	NP_005038	Q16401	PSMD5_HUMAN	proteasome 26S non-ATPase subunit 5	114					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|proteasome regulatory particle assembly|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome complex	protein binding				0						AACAGCATCAGAATTTTCAAC	0.348													4	85					0	0	0.000602	0	0	
C5	727	broad.mit.edu	37	9	123769199	123769199	+	Missense_Mutation	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:123769199A>C	uc004bkv.2	-	19	2435	c.2405T>G	c.(2404-2406)GTT>GGT	p.V802G	C5_uc010mvm.1_Missense_Mutation_p.V802G	NM_001735	NP_001726	P01031	CO5_HUMAN	complement component 5 preproprotein	802					activation of MAPK activity|chemotaxis|complement activation, alternative pathway|complement activation, classical pathway|cytolysis|G-protein coupled receptor protein signaling pathway|inflammatory response|negative regulation of macrophage chemotaxis|positive regulation of chemokine secretion|positive regulation vascular endothelial growth factor production	extracellular space|membrane attack complex	chemokine activity|endopeptidase inhibitor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(323;4.98e-53)|GBM - Glioblastoma multiforme(294;0.0242)	Eculizumab(DB01257)	TGAAATGCCAACGCCTTGAAT	0.328													17	48					0	0	0.002299	0	0	
RAB14	51552	broad.mit.edu	37	9	123952946	123952946	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:123952946C>T	uc004blc.2	-	4	626	c.170G>A	c.(169-171)GGC>GAC	p.G57D		NM_016322	NP_057406	P61106	RAB14_HUMAN	GTPase Rab14	57					embryo development|fibroblast growth factor receptor signaling pathway|Golgi to endosome transport|neurotransmitter secretion|protein transport|small GTPase mediated signal transduction	cytosol|early endosome membrane|Golgi membrane|Golgi stack|late endosome|lysosome|membrane fraction|nuclear outer membrane-endoplasmic reticulum membrane network|perinuclear region of cytoplasm|rough endoplasmic reticulum|trans-Golgi network transport vesicle	GDP binding|GTP binding|GTPase activity				0						TATTTTTTGGCCACTAACTTC	0.428													5	70					0	0	0.001168	0	0	
GSN	2934	broad.mit.edu	37	9	124064372	124064372	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:124064372C>T	uc004blf.1	+	2	337	c.276C>T	c.(274-276)GGC>GGT	p.G92G	GSN_uc004bld.1_Silent_p.G41G|GSN_uc010mvq.1_Silent_p.G52G|GSN_uc010mvr.1_Silent_p.G52G|GSN_uc010mvu.1_Silent_p.G41G|GSN_uc010mvt.1_Silent_p.G41G|GSN_uc010mvs.1_Silent_p.G41G|GSN_uc004ble.1_Silent_p.G41G|GSN_uc010mvv.1_Silent_p.G41G|GSN_uc011lyh.1_Silent_p.G58G|GSN_uc011lyi.1_Silent_p.G41G|GSN_uc011lyj.1_Silent_p.G65G	NM_000177	NP_000168	P06396	GELS_HUMAN	gelsolin isoform a precursor	92	Actin-severing (Potential).|Gelsolin-like 1.				actin filament polymerization|actin filament severing|barbed-end actin filament capping|cellular component disassembly involved in apoptosis|cilium morphogenesis	actin cytoskeleton|cytosol	actin binding|calcium ion binding|protein binding			breast(2)|ovary(1)	3						TCTTCACGGGCGACGCCTACG	0.602													6	72					0	0	0.003080	0	0	
DAB2IP	153090	broad.mit.edu	37	9	124522353	124522353	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:124522353C>T	uc004bln.2	+	6	790	c.721C>T	c.(721-723)CGC>TGC	p.R241C	DAB2IP_uc004blo.2_Missense_Mutation_p.R145C	NM_032552	NP_115941	Q5VWQ8	DAB2P_HUMAN	disabled homolog 2 interacting protein isoform	269	C2.				activation of JUN kinase activity|apoptosis in response to endoplasmic reticulum stress|cellular response to epidermal growth factor stimulus|cellular response to tumor necrosis factor|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|negative regulation of epithelial to mesenchymal transition|negative regulation of fibroblast proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of Ras GTPase activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|intrinsic to internal side of plasma membrane	14-3-3 protein binding|death receptor binding|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity|protein phosphatase 2A binding|Ras GTPase activator activity|signaling adaptor activity			ovary(1)|central_nervous_system(1)	2						GCCGCCTCTGCGCACGGTCAC	0.602													16	41					0	0	0.002299	0	0	
DAB2IP	153090	broad.mit.edu	37	9	124528868	124528868	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:124528868C>T	uc004bln.2	+	9	1541	c.1472C>T	c.(1471-1473)GCC>GTC	p.A491V	DAB2IP_uc004blo.2_Missense_Mutation_p.A395V|DAB2IP_uc004blp.2_5'Flank	NM_032552	NP_115941	Q5VWQ8	DAB2P_HUMAN	disabled homolog 2 interacting protein isoform	519	Ras-GAP.				activation of JUN kinase activity|apoptosis in response to endoplasmic reticulum stress|cellular response to epidermal growth factor stimulus|cellular response to tumor necrosis factor|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|negative regulation of epithelial to mesenchymal transition|negative regulation of fibroblast proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of Ras GTPase activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|intrinsic to internal side of plasma membrane	14-3-3 protein binding|death receptor binding|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity|protein phosphatase 2A binding|Ras GTPase activator activity|signaling adaptor activity			ovary(1)|central_nervous_system(1)	2						CTCATCAGCGCCTCCCTCTTC	0.632													6	30					0	0	0.004482	0	0	
LHX6	26468	broad.mit.edu	37	9	124975917	124975917	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:124975917G>A	uc010mvw.2	-	7	1044	c.935C>T	c.(934-936)GCG>GTG	p.A312V	LHX6_uc004blx.3_Missense_Mutation_p.A341V|LHX6_uc004bly.3_Missense_Mutation_p.A341V	NM_014368	NP_055183	Q9UPM6	LHX6_HUMAN	LIM homeobox protein 6 isoform 1	312					cell maturation|cerebral cortex GABAergic interneuron migration|cerebral cortex radially oriented cell migration|cerebral cortex tangential migration	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GACCATGCGCGCCCGCTCGGG	0.736													4	12					0	0	0.009096	0	0	
PTGS1	5742	broad.mit.edu	37	9	125140215	125140215	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:125140215C>A	uc004bmg.1	+	3	267	c.132C>A	c.(130-132)GGC>GGA	p.G44G	PTGS1_uc011lys.1_Silent_p.G19G|PTGS1_uc010mwb.1_5'UTR|PTGS1_uc004bmf.1_Silent_p.G44G|PTGS1_uc004bmh.1_5'UTR|PTGS1_uc011lyt.1_5'UTR	NM_000962	NP_000953	P23219	PGH1_HUMAN	prostaglandin-endoperoxide synthase 1 isoform 1	44	EGF-like.				cyclooxygenase pathway|hormone biosynthetic process|regulation of blood pressure|response to oxidative stress|xenobiotic metabolic process	endoplasmic reticulum membrane|Golgi apparatus|microsome|plasma membrane	heme binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peroxidase activity|prostaglandin-endoperoxide synthase activity			ovary(1)|skin(1)	2					Acetaminophen(DB00316)|Aspirin(DB00945)|Balsalazide(DB01014)|Bromfenac(DB00963)|Ciclopirox(DB01188)|Diclofenac(DB00586)|Diflunisal(DB00861)|Dipyrone(DB04817)|Etodolac(DB00749)|Fenoprofen(DB00573)|Flurbiprofen(DB00712)|gamma-Homolinolenic acid(DB00154)|Ibuprofen(DB01050)|Icosapent(DB00159)|Indomethacin(DB00328)|Ketoprofen(DB01009)|Ketorolac(DB00465)|Lumiracoxib(DB01283)|Meclofenamic acid(DB00939)|Mefenamic acid(DB00784)|Mesalazine(DB00244)|Minoxidil(DB00350)|Nabumetone(DB00461)|Naproxen(DB00788)|Phenacetin(DB03783)|Piroxicam(DB00554)|Rofecoxib(DB00533)|Salicyclic acid(DB00936)|Salsalate(DB01399)|Sulindac(DB00605)|Suprofen(DB00870)|Tenoxicam(DB00469)|Tolmetin(DB00500)	AGCACCAGGGCATCTGTGTCC	0.607													9	47					7.03913e-09	7.54027e-09	0.001368	1	0	
PTGS1	5742	broad.mit.edu	37	9	125143979	125143979	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:125143979C>T	uc004bmg.1	+	7	850	c.715C>T	c.(715-717)CGT>TGT	p.R239C	PTGS1_uc011lys.1_Missense_Mutation_p.R214C|PTGS1_uc010mwb.1_Missense_Mutation_p.R130C|PTGS1_uc004bmf.1_Missense_Mutation_p.R239C|PTGS1_uc004bmh.1_Missense_Mutation_p.R130C|PTGS1_uc011lyt.1_Missense_Mutation_p.R130C	NM_000962	NP_000953	P23219	PGH1_HUMAN	prostaglandin-endoperoxide synthase 1 isoform 1	239					cyclooxygenase pathway|hormone biosynthetic process|regulation of blood pressure|response to oxidative stress|xenobiotic metabolic process	endoplasmic reticulum membrane|Golgi apparatus|microsome|plasma membrane	heme binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peroxidase activity|prostaglandin-endoperoxide synthase activity			ovary(1)|skin(1)	2					Acetaminophen(DB00316)|Aspirin(DB00945)|Balsalazide(DB01014)|Bromfenac(DB00963)|Ciclopirox(DB01188)|Diclofenac(DB00586)|Diflunisal(DB00861)|Dipyrone(DB04817)|Etodolac(DB00749)|Fenoprofen(DB00573)|Flurbiprofen(DB00712)|gamma-Homolinolenic acid(DB00154)|Ibuprofen(DB01050)|Icosapent(DB00159)|Indomethacin(DB00328)|Ketoprofen(DB01009)|Ketorolac(DB00465)|Lumiracoxib(DB01283)|Meclofenamic acid(DB00939)|Mefenamic acid(DB00784)|Mesalazine(DB00244)|Minoxidil(DB00350)|Nabumetone(DB00461)|Naproxen(DB00788)|Phenacetin(DB03783)|Piroxicam(DB00554)|Rofecoxib(DB00533)|Salicyclic acid(DB00936)|Salsalate(DB01399)|Sulindac(DB00605)|Suprofen(DB00870)|Tenoxicam(DB00469)|Tolmetin(DB00500)	CAATCTGGAGCGTCAGTATCA	0.587													14	29					0	0	0.004990	0	0	
OR1L1	26737	broad.mit.edu	37	9	125424697	125424697	+	Missense_Mutation	SNP	C	T	T	rs78370954		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:125424697C>T	uc011lza.1	+	1	853	c.853C>T	c.(853-855)CGT>TGT	p.R285C		NM_001005236	NP_001005236	Q8NH94	OR1L1_HUMAN	olfactory receptor, family 1, subfamily L,	285	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(1)	4						TGCTGGAAAGCGTAAAGCATT	0.428													15	151					0	0	0.003163	0	0	
ZBTB26	57684	broad.mit.edu	37	9	125681251	125681251	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:125681251G>A	uc004bnj.2	-	2	1175	c.963C>T	c.(961-963)GCC>GCT	p.A321A	ZBTB26_uc004bnk.2_Silent_p.A321A	NM_020924	NP_065975	Q9HCK0	ZBT26_HUMAN	zinc finger and BTB domain containing 26	321					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GTTTAATTCCGGCATGCACAC	0.428													22	65					0	0	0.002780	0	0	
STRBP	55342	broad.mit.edu	37	9	125898431	125898431	+	Silent	SNP	G	A	A	rs141839908		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:125898431G>A	uc004bns.2	-	16	2092	c.1662C>T	c.(1660-1662)GGC>GGT	p.G554G	STRBP_uc004bnt.2_Silent_p.G372G|STRBP_uc004bnu.2_Silent_p.G540G|STRBP_uc004bnv.2_Silent_p.G554G|STRBP_uc004bnr.2_Silent_p.G113G	NM_018387	NP_060857	Q96SI9	STRBP_HUMAN	spermatid perinuclear RNA binding protein	554	DRBM 2.				multicellular organismal development	cytoplasm|nucleus	DNA binding			breast(1)|skin(1)	2						TTGGACCTGCGCCTCTGAATT	0.388													24	80					0	0	0.005443	0	0	
STRBP	55342	broad.mit.edu	37	9	125941475	125941475	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:125941475C>T	uc004bns.2	-	4	465	c.35G>A	c.(34-36)CGC>CAC	p.R12H	STRBP_uc004bnt.2_5'UTR|STRBP_uc004bnu.2_5'UTR|STRBP_uc004bnv.2_Missense_Mutation_p.R12H	NM_018387	NP_060857	Q96SI9	STRBP_HUMAN	spermatid perinuclear RNA binding protein	12					multicellular organismal development	cytoplasm|nucleus	DNA binding			breast(1)|skin(1)	2						CATAACATGGCGATCATCATT	0.358													13	54					0	0	0.003163	0	0	
CRB2	286204	broad.mit.edu	37	9	126132504	126132504	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:126132504G>A	uc004bnx.1	+	7	1264	c.1172G>A	c.(1171-1173)CGC>CAC	p.R391H	CRB2_uc004bnw.1_Missense_Mutation_p.R391H	NM_173689	NP_775960	Q5IJ48	CRUM2_HUMAN	crumbs homolog 2 precursor	391	Extracellular (Potential).|EGF-like 8; calcium-binding (Potential).					extracellular region|integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						TGGGGTGGGCGCGACTGTTCT	0.627													5	13					0	0	0.000602	0	0	
CRB2	286204	broad.mit.edu	37	9	126132729	126132729	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:126132729G>A	uc004bnx.1	+	7	1489	c.1397G>A	c.(1396-1398)CGC>CAC	p.R466H	CRB2_uc004bnw.1_Missense_Mutation_p.R466H	NM_173689	NP_775960	Q5IJ48	CRUM2_HUMAN	crumbs homolog 2 precursor	466	Extracellular (Potential).|Laminin G-like 1.					extracellular region|integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						CTGAGGTTTCGCACCACACTG	0.612													8	22					0	0	0.003080	0	0	
CRB2	286204	broad.mit.edu	37	9	126133829	126133829	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:126133829C>T	uc004bnx.1	+	8	2500	c.2408C>T	c.(2407-2409)GCG>GTG	p.A803V	CRB2_uc004bnw.1_Missense_Mutation_p.A803V	NM_173689	NP_775960	Q5IJ48	CRUM2_HUMAN	crumbs homolog 2 precursor	803	Extracellular (Potential).|Laminin G-like 2.					extracellular region|integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						AACCTCACTGCGGGCTGCGTC	0.632													5	11					0	0	0.001168	0	0	
LHX2	9355	broad.mit.edu	37	9	126777465	126777465	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:126777465C>T	uc004boe.1	+	3	1127	c.388C>T	c.(388-390)CGC>TGC	p.R130C	LHX2_uc010mwi.1_Missense_Mutation_p.R138C	NM_004789	NP_004780	P50458	LHX2_HUMAN	LIM homeobox protein 2	130	LIM zinc-binding 2.					nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GATGGTGATGCGCGCTCGGGA	0.622													31	85					0	0	0.003755	0	0	
OLFML2A	169611	broad.mit.edu	37	9	127572560	127572560	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:127572560G>A	uc004bov.2	+	8	1941	c.1828G>A	c.(1828-1830)GCA>ACA	p.A610T	OLFML2A_uc004bow.2_Missense_Mutation_p.A396T	NM_182487	NP_872293	Q68BL7	OLM2A_HUMAN	olfactomedin-like 2A precursor	610	Olfactomedin-like.										0						GGGCACCGACGCACGCCCCCA	0.632													6	23					0	0	0.001168	0	0	
MAPKAP1	79109	broad.mit.edu	37	9	128434766	128434766	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:128434766C>T	uc004bpv.2	-	2	421	c.88G>A	c.(88-90)GTT>ATT	p.V30I	MAPKAP1_uc004bpw.2_Intron|MAPKAP1_uc004bpx.2_Intron|MAPKAP1_uc004bpy.2_Missense_Mutation_p.V30I|MAPKAP1_uc004bpz.2_Missense_Mutation_p.V30I|MAPKAP1_uc010mxa.2_RNA|MAPKAP1_uc004bqa.2_Missense_Mutation_p.V30I	NM_001006617	NP_001006618	Q9BPZ7	SIN1_HUMAN	mitogen-activated protein kinase associated	30	Interaction with MAP3K2.				nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|response to stress|T cell costimulation	cytoplasmic membrane-bounded vesicle|cytosol|nucleus|plasma membrane	Ras GTPase binding			ovary(2)|lung(2)	4						TCAATGAGAACCATCTCACAC	0.468													24	46					0	0	0.003954	0	0	
STXBP1	6812	broad.mit.edu	37	9	130430453	130430453	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:130430453G>A	uc004brl.2	+	10	1086	c.889G>A	c.(889-891)GCA>ACA	p.A297T	STXBP1_uc004brk.2_Missense_Mutation_p.A297T	NM_001032221	NP_001027392	P61764	STXB1_HUMAN	syntaxin binding protein 1 isoform b	297					axon target recognition|energy reserve metabolic process|glutamate secretion|negative regulation of synaptic transmission, GABAergic|neurotransmitter secretion|platelet aggregation|platelet degranulation|protein transport|regulation of insulin secretion|regulation of synaptic vesicle priming|synaptic vesicle maturation|vesicle docking involved in exocytosis	cytosol|mitochondrion|plasma membrane|platelet alpha granule|protein complex	identical protein binding|syntaxin-1 binding|syntaxin-2 binding			skin(1)	1						CAAGCACATCGCAGAGGTGTC	0.632													6	22					0	0	0.001168	0	0	
ODF2	4957	broad.mit.edu	37	9	131262457	131262457	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:131262457G>A	uc011mbd.1	+	21	2724	c.2413G>A	c.(2413-2415)GCC>ACC	p.A805T	ODF2_uc004bvb.2_Missense_Mutation_p.A781T|ODF2_uc011mbe.1_Missense_Mutation_p.A800T|ODF2_uc004bvc.2_Missense_Mutation_p.A781T|ODF2_uc004bvd.3_Missense_Mutation_p.A805T|ODF2_uc004bvh.2_Missense_Mutation_p.A211T	NM_002540	NP_002531	Q5BJF6	ODFP2_HUMAN	outer dense fiber of sperm tails 2 isoform 1	805					cell differentiation|G2/M transition of mitotic cell cycle|multicellular organismal development|spermatogenesis	centriole|cilium|cytosol|microtubule|spindle pole	protein binding|structural molecule activity			ovary(1)	1						ATCATCATACGCCAACGTGTT	0.577													38	97					0	0	0.006230	0	0	
PKN3	29941	broad.mit.edu	37	9	131475831	131475831	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:131475831C>T	uc004bvw.2	+	9	1539	c.1146C>T	c.(1144-1146)GGC>GGT	p.G382G	PKN3_uc010myh.2_Silent_p.G382G|PKN3_uc011mbk.1_5'UTR	NM_013355	NP_037487	Q6P5Z2	PKN3_HUMAN	protein kinase PKNbeta	382					signal transduction	Golgi apparatus|nucleus|perinuclear region of cytoplasm	ATP binding|protein binding|protein kinase C activity			stomach(2)|lung(2)	4						AGCTATGTGGCGTGGCCTTCC	0.622													8	25					0	0	0.004482	0	0	
PKN3	29941	broad.mit.edu	37	9	131476578	131476578	+	Missense_Mutation	SNP	G	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:131476578G>C	uc004bvw.2	+	11	1808	c.1415G>C	c.(1414-1416)AGC>ACC	p.S472T	PKN3_uc010myh.2_Missense_Mutation_p.S472T|PKN3_uc011mbk.1_Missense_Mutation_p.S22T	NM_013355	NP_037487	Q6P5Z2	PKN3_HUMAN	protein kinase PKNbeta	472	Pro-rich.				signal transduction	Golgi apparatus|nucleus|perinuclear region of cytoplasm	ATP binding|protein binding|protein kinase C activity			stomach(2)|lung(2)	4						AGCACAATCAGCCCCCCTAAA	0.652													15	57					0	0	0.004990	0	0	
TBC1D13	54662	broad.mit.edu	37	9	131568288	131568288	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:131568288G>A	uc010myj.2	+	10	1192	c.1069G>A	c.(1069-1071)GCC>ACC	p.A357T	TBC1D13_uc010myk.2_Missense_Mutation_p.A232T|TBC1D13_uc010myl.2_Missense_Mutation_p.A176T	NM_018201	NP_060671	Q9NVG8	TBC13_HUMAN	TBC1 domain family, member 13	357						intracellular	Rab GTPase activator activity				0						CGTCTGCTGCGCCATGCTCAT	0.622													9	32					0	0	0.000978	0	0	
LRRC8A	56262	broad.mit.edu	37	9	131671260	131671260	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:131671260T>A	uc004bwl.3	+	3	2071	c.1817T>A	c.(1816-1818)ATC>AAC	p.I606N	LRRC8A_uc010myp.2_Missense_Mutation_p.I606N|LRRC8A_uc010myq.2_Missense_Mutation_p.I606N	NM_019594	NP_062540	Q8IWT6	LRC8A_HUMAN	leucine rich repeat containing 8 family, member	606	LRR 10.				pre-B cell differentiation	integral to membrane					0						CTGGAGCGCATCCCCCACTCC	0.552													12	40					0	0	0.001855	0	0	
NUP188	23511	broad.mit.edu	37	9	131760467	131760467	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:131760467G>A	uc004bws.1	+	31	3411	c.3389G>A	c.(3388-3390)CGC>CAC	p.R1130H	NUP188_uc004bwu.2_Missense_Mutation_p.R473H	NM_015354	NP_056169	Q5SRE5	NU188_HUMAN	nucleoporin 188kDa	1130					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|kidney(1)|breast(1)	7						GTGGTGCGTCGCCAGCTCTTT	0.438													77	167					0	0	0.003610	0	0	
SH3GLB2	56904	broad.mit.edu	37	9	131777084	131777084	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:131777084C>T	uc004bwv.2	-	4	580	c.434G>A	c.(433-435)CGC>CAC	p.R145H	SH3GLB2_uc004bww.2_Missense_Mutation_p.R145H|SH3GLB2_uc004bwx.1_Missense_Mutation_p.R145H|SH3GLB2_uc011mbm.1_Missense_Mutation_p.R145H	NM_020145	NP_064530	Q9NR46	SHLB2_HUMAN	SH3-domain GRB2-like endophilin B2	145	BAR.				filopodium assembly|signal transduction	cytoplasm|nucleus	cytoskeletal adaptor activity|SH3 domain binding				0						CAGGAAGTTGCGCAAGGGTGT	0.572													11	58					0	0	0.000978	0	0	
USP20	10868	broad.mit.edu	37	9	132636952	132636952	+	Missense_Mutation	SNP	G	A	A	rs142714756	by1000genomes	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:132636952G>A	uc004bys.2	+	18	2049	c.1838G>A	c.(1837-1839)CGC>CAC	p.R613H	USP20_uc004byr.2_Missense_Mutation_p.R613H|USP20_uc004byt.1_Missense_Mutation_p.R613H	NM_001110303	NP_001103773	Q9Y2K6	UBP20_HUMAN	ubiquitin specific protease 20	613					endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|ubiquitin thiolesterase activity|zinc ion binding			lung(1)|breast(1)	2		Ovarian(14;0.00556)				CTCGACCTGCGCCCCTTCCTT	0.592													7	46					0	0	0.001984	0	0	
ASS1	445	broad.mit.edu	37	9	133339508	133339508	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:133339508A>G	uc004bzm.2	+	6	730	c.374A>G	c.(373-375)CAG>CGG	p.Q125R	ASS1_uc004bzn.2_Missense_Mutation_p.Q125R|ASS1_uc010mza.2_Missense_Mutation_p.Q201R|ASS1_uc004bzo.2_Intron|ASS1_uc010mzb.2_Missense_Mutation_p.Q163R|ASS1_uc004bzp.2_Missense_Mutation_p.Q125R|ASS1_uc010mzc.2_Missense_Mutation_p.Q125R	NM_000050	NP_000041	P00966	ASSY_HUMAN	argininosuccinate synthetase 1	125					arginine biosynthetic process|urea cycle	cytosol	argininosuccinate synthase activity|ATP binding|protein binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;0.000514)	Adenosine triphosphate(DB00171)|L-Arginine(DB00125)|L-Aspartic Acid(DB00128)|L-Citrulline(DB00155)	GGGAACGATCAGGTCCGGTTT	0.602													6	23					0	0	0.001168	0	0	
ABL1	25	broad.mit.edu	37	9	133738377	133738377	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:133738377C>T	uc004bzw.2	+	4	780	c.777C>T	c.(775-777)GGC>GGT	p.G259G	ABL1_uc004bzv.2_Silent_p.G278G|uc004bzx.1_5'Flank	NM_005157	NP_005148	P00519	ABL1_HUMAN	c-abl oncogene 1, receptor tyrosine kinase	259	Protein kinase.				actin cytoskeleton organization|axon guidance|blood coagulation|cell adhesion|DNA damage induced protein phosphorylation|DNA damage response, signal transduction resulting in induction of apoptosis|mismatch repair|muscle cell differentiation|negative regulation of protein serine/threonine kinase activity|peptidyl-tyrosine phosphorylation|positive regulation of muscle cell differentiation|positive regulation of oxidoreductase activity|regulation of transcription involved in S phase of mitotic cell cycle	cytoskeleton|cytosol|nuclear membrane|nucleolus|perinuclear region of cytoplasm	ATP binding|DNA binding|magnesium ion binding|manganese ion binding|mitogen-activated protein kinase binding|non-membrane spanning protein tyrosine kinase activity|proline-rich region binding|protein C-terminus binding|SH3 domain binding			haematopoietic_and_lymphoid_tissue(807)|lung(5)|stomach(2)|central_nervous_system(1)|breast(1)|skin(1)	817		all_hematologic(13;0.0361)|Acute lymphoblastic leukemia(5;0.0543)|Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.4e-05)	Adenosine triphosphate(DB00171)|Dasatinib(DB01254)|Imatinib(DB00619)	TGTACGAGGGCGTGTGGAAGA	0.627			T|Mis	BCR|ETV6|NUP214	CML|ALL|T-ALL								13	29					0	0	0.002450	0	0	
ABL1	25	broad.mit.edu	37	9	133759406	133759406	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:133759406C>T	uc004bzw.2	+	11	1732	c.1729C>T	c.(1729-1731)CGA>TGA	p.R577*	ABL1_uc004bzv.2_Nonsense_Mutation_p.R596*	NM_005157	NP_005148	P00519	ABL1_HUMAN	c-abl oncogene 1, receptor tyrosine kinase	577					actin cytoskeleton organization|axon guidance|blood coagulation|cell adhesion|DNA damage induced protein phosphorylation|DNA damage response, signal transduction resulting in induction of apoptosis|mismatch repair|muscle cell differentiation|negative regulation of protein serine/threonine kinase activity|peptidyl-tyrosine phosphorylation|positive regulation of muscle cell differentiation|positive regulation of oxidoreductase activity|regulation of transcription involved in S phase of mitotic cell cycle	cytoskeleton|cytosol|nuclear membrane|nucleolus|perinuclear region of cytoplasm	ATP binding|DNA binding|magnesium ion binding|manganese ion binding|mitogen-activated protein kinase binding|non-membrane spanning protein tyrosine kinase activity|proline-rich region binding|protein C-terminus binding|SH3 domain binding			haematopoietic_and_lymphoid_tissue(807)|lung(5)|stomach(2)|central_nervous_system(1)|breast(1)|skin(1)	817		all_hematologic(13;0.0361)|Acute lymphoblastic leukemia(5;0.0543)|Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.4e-05)	Adenosine triphosphate(DB00171)|Dasatinib(DB01254)|Imatinib(DB00619)	TCGAAAAGAGCGAGGTCCCCC	0.478			T|Mis	BCR|ETV6|NUP214	CML|ALL|T-ALL								27	71					0	0	0.009535	0	0	
ABL1	25	broad.mit.edu	37	9	133760767	133760767	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:133760767C>T	uc004bzw.2	+	11	3093	c.3090C>T	c.(3088-3090)GGC>GGT	p.G1030G	ABL1_uc004bzv.2_Silent_p.G1049G	NM_005157	NP_005148	P00519	ABL1_HUMAN	c-abl oncogene 1, receptor tyrosine kinase	1030	F-actin-binding.				actin cytoskeleton organization|axon guidance|blood coagulation|cell adhesion|DNA damage induced protein phosphorylation|DNA damage response, signal transduction resulting in induction of apoptosis|mismatch repair|muscle cell differentiation|negative regulation of protein serine/threonine kinase activity|peptidyl-tyrosine phosphorylation|positive regulation of muscle cell differentiation|positive regulation of oxidoreductase activity|regulation of transcription involved in S phase of mitotic cell cycle	cytoskeleton|cytosol|nuclear membrane|nucleolus|perinuclear region of cytoplasm	ATP binding|DNA binding|magnesium ion binding|manganese ion binding|mitogen-activated protein kinase binding|non-membrane spanning protein tyrosine kinase activity|proline-rich region binding|protein C-terminus binding|SH3 domain binding			haematopoietic_and_lymphoid_tissue(807)|lung(5)|stomach(2)|central_nervous_system(1)|breast(1)|skin(1)	817		all_hematologic(13;0.0361)|Acute lymphoblastic leukemia(5;0.0543)|Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.4e-05)	Adenosine triphosphate(DB00171)|Dasatinib(DB01254)|Imatinib(DB00619)	TCACCAAGGGCGTGGTCCTGG	0.632			T|Mis	BCR|ETV6|NUP214	CML|ALL|T-ALL								12	29					0	0	0.002450	0	0	
LAMC3	10319	broad.mit.edu	37	9	133946996	133946996	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:133946996C>T	uc004caa.1	+	18	3293	c.3195C>T	c.(3193-3195)GGC>GGT	p.G1065G		NM_006059	NP_006050	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3 precursor	1065	Domain II and I.				cell adhesion	basement membrane|membrane	structural molecule activity			ovary(2)|pancreas(1)	3	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		TCTACCAGGGCCATCACCTGC	0.657													9	14					0	0	0.008291	0	0	
NUP214	8021	broad.mit.edu	37	9	134002952	134002952	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:134002952C>A	uc004cag.2	+	2	198	c.87C>A	c.(85-87)GAC>GAA	p.D29E	NUP214_uc004cah.2_Missense_Mutation_p.D29E|NUP214_uc004caf.1_Missense_Mutation_p.D29E	NM_005085	NP_005076	P35658	NU214_HUMAN	nucleoporin 214kDa	29					carbohydrate metabolic process|glucose transport|mRNA metabolic process|protein export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore|nucleoplasm	protein binding			breast(7)|lung(3)|skin(3)|ovary(2)|central_nervous_system(1)	16	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;3.42e-05)|Epithelial(140;0.000256)		GAATCTTTGACTCCCCTGAGG	0.418			T	DEK|SET|ABL1	AML|T-ALL								31	101					3.76114e-14	4.08591e-14	0.004289	1	0	
NUP214	8021	broad.mit.edu	37	9	134004682	134004682	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:134004682G>A	uc004cag.2	+	4	521	c.410G>A	c.(409-411)CGC>CAC	p.R137H	NUP214_uc004cah.2_Missense_Mutation_p.R137H|NUP214_uc004caf.1_Missense_Mutation_p.R137H	NM_005085	NP_005076	P35658	NU214_HUMAN	nucleoporin 214kDa	137					carbohydrate metabolic process|glucose transport|mRNA metabolic process|protein export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore|nucleoplasm	protein binding			breast(7)|lung(3)|skin(3)|ovary(2)|central_nervous_system(1)	16	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;3.42e-05)|Epithelial(140;0.000256)		CAGCAAAAACGCCCATTTGCC	0.368			T	DEK|SET|ABL1	AML|T-ALL								22	59					0	0	0.003330	0	0	
NUP214	8021	broad.mit.edu	37	9	134019919	134019919	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:134019919G>A	uc004cag.2	+	12	1658	c.1547G>A	c.(1546-1548)GGC>GAC	p.G516D	NUP214_uc004cah.2_Missense_Mutation_p.G516D|NUP214_uc004cai.2_5'UTR|NUP214_uc004caf.1_Missense_Mutation_p.G516D|NUP214_uc010mzf.2_5'UTR	NM_005085	NP_005076	P35658	NU214_HUMAN	nucleoporin 214kDa	516	11 X 5 AA approximate repeats.				carbohydrate metabolic process|glucose transport|mRNA metabolic process|protein export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore|nucleoplasm	protein binding			breast(7)|lung(3)|skin(3)|ovary(2)|central_nervous_system(1)	16	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;3.42e-05)|Epithelial(140;0.000256)		CCAGGCCCTGGCCCATCAACC	0.562			T	DEK|SET|ABL1	AML|T-ALL								6	85					0	0	0.001168	0	0	
BAT2L1	84726	broad.mit.edu	37	9	134330540	134330540	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:134330540G>A	uc004can.3	+	9	1253	c.1198G>A	c.(1198-1200)GGC>AGC	p.G400S	BAT2L1_uc010mzj.1_5'UTR	NM_013318	NP_037450	Q5JSZ5	PRC2B_HUMAN	HLA-B associated transcript 2-like	400							protein binding				0						TGTGAAGGACGGCAGGCCAAA	0.507													6	35					0	0	0.003080	0	0	
BAT2L1	84726	broad.mit.edu	37	9	134351424	134351424	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:134351424G>A	uc004can.3	+	15	3963	c.3908G>A	c.(3907-3909)CGC>CAC	p.R1303H	BAT2L1_uc010mzj.1_Missense_Mutation_p.R886H|BAT2L1_uc004cao.3_Missense_Mutation_p.R661H	NM_013318	NP_037450	Q5JSZ5	PRC2B_HUMAN	HLA-B associated transcript 2-like	1303							protein binding				0						AGGAGAAGGCGCCCCCCACGC	0.637											OREG0019561	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	24	29					0	0	0.008361	0	0	
NTNG2	84628	broad.mit.edu	37	9	135114555	135114555	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:135114555C>T	uc004cbh.2	+	6	1895	c.1119C>T	c.(1117-1119)TGC>TGT	p.C373C		NM_032536	NP_115925	Q96CW9	NTNG2_HUMAN	netrin G2 precursor	373	Laminin EGF-like 2.				axonogenesis	anchored to plasma membrane					0				OV - Ovarian serous cystadenocarcinoma(145;1.23e-05)|Epithelial(140;0.000173)		TGGTGACCTGCGTCAGCTGCA	0.587													12	27					0	0	0.002450	0	0	
SETX	23064	broad.mit.edu	37	9	135203175	135203175	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:135203175C>T	uc004cbk.2	-	10	3993	c.3810G>A	c.(3808-3810)CCG>CCA	p.P1270P	SETX_uc004cbj.2_Silent_p.P889P|SETX_uc010mzt.2_Silent_p.P889P	NM_015046	NP_055861	Q7Z333	SETX_HUMAN	senataxin	1270					cell death|double-strand break repair|RNA processing	cytoplasm|nucleolus|nucleoplasm	ATP binding|DNA helicase activity			ovary(2)|skin(1)	3		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)		ATTTCTTTGGCGGCACTATAG	0.433													11	183					0	0	0.000978	0	0	
TTF1	7270	broad.mit.edu	37	9	135275547	135275547	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:135275547G>A	uc004cbl.2	-	3	1518	c.1466C>T	c.(1465-1467)GCG>GTG	p.A489V	TTF1_uc011mcp.1_RNA|TTF1_uc004cbm.2_5'UTR	NM_007344	NP_031370	Q15361	TTF1_HUMAN	transcription termination factor, RNA polymerase	489					negative regulation of DNA replication|regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription	nucleolus|nucleoplasm	DNA binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;4.25e-06)|Epithelial(140;9.09e-05)		ACCCAAATCCGCATCTGAATC	0.463													33	126					0	0	0.002836	0	0	
DDX31	64794	broad.mit.edu	37	9	135487616	135487616	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:135487616C>T	uc004cbq.1	-	19	2319	c.2167G>A	c.(2167-2169)GCC>ACC	p.A723T	DDX31_uc010mzu.1_Missense_Mutation_p.A650T	NM_022779	NP_073616	Q9H8H2	DDX31_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 31	723						nucleolus	ATP binding|ATP-dependent helicase activity|RNA binding			central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(145;2.67e-06)|Epithelial(140;7.61e-05)		GGGTAGGTGGCGTAGGCTTGG	0.587													15	55					0	0	0.004007	0	0	
TSC1	7248	broad.mit.edu	37	9	135797351	135797351	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:135797351G>A	uc004cca.2	-	7	752	c.518C>T	c.(517-519)GCG>GTG	p.A173V	TSC1_uc004ccb.3_Missense_Mutation_p.A173V|TSC1_uc011mcq.1_Missense_Mutation_p.A122V|TSC1_uc011mcr.1_Missense_Mutation_p.A52V|TSC1_uc011mcs.1_Missense_Mutation_p.A52V|TSC1_uc004ccc.1_Missense_Mutation_p.A173V|TSC1_uc004ccd.2_Missense_Mutation_p.A173V|TSC1_uc004cce.1_Missense_Mutation_p.A173V	NM_000368	NP_000359	Q92574	TSC1_HUMAN	tuberous sclerosis 1 protein isoform 1	173					activation of Rho GTPase activity|cell cycle arrest|cell-matrix adhesion|insulin receptor signaling pathway|negative regulation of cell proliferation|negative regulation of protein ubiquitination|negative regulation of TOR signaling cascade|negative regulation of translation|positive regulation of focal adhesion assembly|regulation of phosphoprotein phosphatase activity|regulation of stress fiber assembly|rRNA export from nucleus	cell cortex|lamellipodium|membrane|TSC1-TSC2 complex	chaperone binding|protein N-terminus binding			lung(4)|central_nervous_system(3)|breast(2)|haematopoietic_and_lymphoid_tissue(1)|urinary_tract(1)|skin(1)|ovary(1)|bone(1)	14				OV - Ovarian serous cystadenocarcinoma(145;4.32e-08)|Epithelial(140;2.72e-06)		ATAGACTTCCGCCACGTGGCC	0.488			D|Mis|N|F|S			hamartoma|renal cell			Tuberous_Sclerosis				29	106					0	0	0.002836	0	0	
GTF3C5	9328	broad.mit.edu	37	9	135931464	135931464	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:135931464C>T	uc004cci.3	+	9	1570	c.1233C>T	c.(1231-1233)TGC>TGT	p.C411C	GTF3C5_uc004ccj.3_Silent_p.C418C	NM_012087	NP_036219	Q9Y5Q8	TF3C5_HUMAN	general transcription factor IIIC, polypeptide 5	411						transcription factor TFIIIC complex	DNA binding|protein binding				0				OV - Ovarian serous cystadenocarcinoma(145;4.01e-06)|Epithelial(140;4e-05)		ACCAGTTATGCGACTTGAATG	0.572													4	25					0	0	0.009096	0	0	
RALGDS	5900	broad.mit.edu	37	9	135982604	135982604	+	Silent	SNP	C	T	T	rs139454388		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:135982604C>T	uc004cco.2	-	7	1301	c.1281G>A	c.(1279-1281)GCG>GCA	p.A427A	RALGDS_uc004ccp.2_RNA|RALGDS_uc004ccq.2_Silent_p.A415A|RALGDS_uc004ccr.2_Silent_p.A426A|RALGDS_uc011mcv.1_Silent_p.A398A|RALGDS_uc004ccs.2_Silent_p.A372A|RALGDS_uc011mcw.1_Silent_p.A498A|RALGDS_uc004ccv.1_Silent_p.A196A|RALGDS_uc004ccu.1_Silent_p.A196A	NM_006266	NP_006257	Q12967	GNDS_HUMAN	ral guanine nucleotide dissociation stimulator	427	Ras-GEF.				nerve growth factor receptor signaling pathway|Ras protein signal transduction|regulation of small GTPase mediated signal transduction	cytosol	Ral guanyl-nucleotide exchange factor activity			large_intestine(1)|lung(1)|ovary(1)	3				OV - Ovarian serous cystadenocarcinoma(145;3.66e-06)|Epithelial(140;2.77e-05)		GGATGGTGGGCGCCAGGTGCT	0.617			T	CIITA	PMBL|Hodgkin Lymphona|								4	15					0	0	0.009096	0	0	
C9orf96	169436	broad.mit.edu	37	9	136256456	136256456	+	Splice_Site	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:136256456G>T	uc004cdk.2	+	7	529	c.468_splice	c.e7-1	p.R156_splice	C9orf96_uc004cdl.2_Intron	NM_153710	NP_714921	Q8NE28	SGK71_HUMAN	hypothetical protein LOC169436								ATP binding|protein kinase activity			stomach(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)		CTTGGTTTCAGGAATCTCAAA	0.542													22	258					1.36565e-18	1.49414e-18	0.002780	1	0	
ADAMTS13	11093	broad.mit.edu	37	9	136319700	136319700	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:136319700G>A	uc004cdv.3	+	24	3652	c.3208G>A	c.(3208-3210)GCC>ACC	p.A1070T	ADAMTS13_uc004cdp.3_Missense_Mutation_p.A297T|ADAMTS13_uc004cdt.1_Missense_Mutation_p.A1070T|ADAMTS13_uc004cdu.1_Missense_Mutation_p.A1039T|ADAMTS13_uc004cdw.3_Missense_Mutation_p.A1070T|ADAMTS13_uc004cdx.3_Missense_Mutation_p.A1039T|ADAMTS13_uc004cdz.3_Missense_Mutation_p.A740T|ADAMTS13_uc004cea.1_5'Flank|ADAMTS13_uc004ceb.3_5'Flank	NM_139025	NP_620594	Q76LX8	ATS13_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1070					cell-matrix adhesion|glycoprotein metabolic process|integrin-mediated signaling pathway|peptide catabolic process|platelet activation|protein processing|proteolysis	cell surface|proteinaceous extracellular matrix	calcium ion binding|integrin binding|metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|skin(2)|ovary(1)|kidney(1)	6				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)		CTGTCTCATTGCCGACTGCAC	0.677													3	5					0	0	0.001984	0	0	
DBH	1621	broad.mit.edu	37	9	136508675	136508675	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:136508675C>T	uc004cel.2	+	4	894	c.885C>T	c.(883-885)TGC>TGT	p.C295C		NM_000787	NP_000778	P09172	DOPO_HUMAN	dopamine beta hydroxylase precursor	295	Intragranular (Potential).				hormone biosynthetic process	chromaffin granule lumen|chromaffin granule membrane|extracellular region|integral to membrane|membrane fraction|soluble fraction|transport vesicle membrane	dopamine beta-monooxygenase activity|L-ascorbic acid binding			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(145;2.33e-07)|Epithelial(140;1.5e-06)|all cancers(34;1.66e-05)	Dopamine(DB00988)|Vitamin C(DB00126)	TCAACTACTGCCGCCACGTGC	0.677													3	7					0	0	0.008291	0	0	
VAV2	7410	broad.mit.edu	37	9	136643996	136643996	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:136643996G>A	uc004ces.2	-	22	1824	c.1778C>T	c.(1777-1779)GCC>GTC	p.A593V	VAV2_uc004cer.2_Missense_Mutation_p.A583V|VAV2_uc004cet.1_Missense_Mutation_p.A132V	NM_001134398	NP_001127870	P52735	VAV2_HUMAN	vav 2 guanine nucleotide exchange factor isoform	593	SH3 1.				angiogenesis|apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	metal ion binding|Rho guanyl-nucleotide exchange factor activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(145;3.9e-07)|Epithelial(140;2.07e-06)|all cancers(34;9.39e-06)		ATTCTGCATGGCCACCATCTT	0.627													16	18					0	0	0.007413	0	0	
VAV2	7410	broad.mit.edu	37	9	136677305	136677305	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:136677305G>A	uc004ces.2	-	5	529	c.483C>T	c.(481-483)TGC>TGT	p.C161C	VAV2_uc004cer.2_Silent_p.C161C	NM_001134398	NP_001127870	P52735	VAV2_HUMAN	vav 2 guanine nucleotide exchange factor isoform	161					angiogenesis|apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	metal ion binding|Rho guanyl-nucleotide exchange factor activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(145;3.9e-07)|Epithelial(140;2.07e-06)|all cancers(34;9.39e-06)		CACACGGGACGCAGTCGTAGA	0.667													16	54					0	0	0.007413	0	0	
BRD3	8019	broad.mit.edu	37	9	136913403	136913403	+	Silent	SNP	G	A	A	rs141698176	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:136913403G>A	uc004cew.2	-	6	1076	c.888C>T	c.(886-888)GGC>GGT	p.G296G	BRD3_uc004cex.2_Silent_p.G296G	NM_007371	NP_031397	Q15059	BRD3_HUMAN	bromodomain containing protein 3	296						nucleus	protein binding		BRD3/C15orf55(3)	stomach(4)|midline_organs(3)|kidney(1)	8				OV - Ovarian serous cystadenocarcinoma(145;1.43e-08)|Epithelial(140;8.41e-08)|all cancers(34;5.21e-07)		GGGGCACCTCGCCGTCCTCCA	0.662			T	NUT|C15orf55	lethal midline carcinoma of young people								5	21					0	0	0.001168	0	0	
RXRA	6256	broad.mit.edu	37	9	137300846	137300846	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:137300846G>A	uc004cfb.2	+	4	653	c.491G>A	c.(490-492)CGC>CAC	p.R164H	RXRA_uc004cfc.1_Missense_Mutation_p.R67H	NM_002957	NP_002948	P19793	RXRA_HUMAN	retinoid X receptor, alpha	164	Nuclear receptor.				cellular lipid metabolic process|cholesterol metabolic process|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to retinoic acid|vitamin metabolic process	nuclear chromatin|nucleoplasm	enzyme binding|ligand-regulated transcription factor activity|protein heterodimerization activity|retinoic acid-responsive element binding|retinoid-X receptor activity|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|transcription coactivator activity|vitamin D receptor binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(145;4.66e-08)|Epithelial(140;6.72e-08)|all cancers(34;2.22e-07)	Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)	CGGACGGTGCGCAAGGACCTG	0.642													6	62					0	0	0.001984	0	0	
KIAA0649	9858	broad.mit.edu	37	9	138376878	138376878	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:138376878G>A	uc004cfr.1	+	4	1071	c.522G>A	c.(520-522)CCG>CCA	p.P174P		NM_014811	NP_055626	Q5T8A7	K0649_HUMAN	1A6/DRIM (down-regulated in metastasis)	174						nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(145;6.91e-08)|Epithelial(140;4.69e-07)|all cancers(34;9.33e-06)		GATGTAAGCCGGAACCGGCTC	0.687													4	7					0	0	0.009096	0	0	
KIAA0649	9858	broad.mit.edu	37	9	138379962	138379962	+	Silent	SNP	C	T	T	rs139604299	byFrequency	TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:138379962C>T	uc004cfr.1	+	4	4155	c.3606C>T	c.(3604-3606)GGC>GGT	p.G1202G		NM_014811	NP_055626	Q5T8A7	K0649_HUMAN	1A6/DRIM (down-regulated in metastasis)	1202						nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(145;6.91e-08)|Epithelial(140;4.69e-07)|all cancers(34;9.33e-06)		AGGACAGTGGCGGCAGCTCAG	0.612													5	13					0	0	0.001984	0	0	
LCN9	392399	broad.mit.edu	37	9	138557549	138557549	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:138557549C>T	uc004cgk.1	+	5	426	c.426C>T	c.(424-426)TGC>TGT	p.C142C		NM_001001676	NP_001001676	Q8WX39	LCN9_HUMAN	lipocalin 9	142						extracellular region	pheromone binding|transporter activity			large_intestine(2)	2		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;3.43e-07)|Epithelial(140;1.97e-06)|all cancers(34;6.1e-05)		AAGAAACCTGCGAAAAGTACG	0.572													4	16					0	0	0.000602	0	0	
CAMSAP1	157922	broad.mit.edu	37	9	138714394	138714394	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:138714394C>G	uc004cgr.3	-	11	2113	c.2113G>C	c.(2113-2115)GGC>CGC	p.G705R	CAMSAP1_uc004cgq.3_Missense_Mutation_p.G595R|CAMSAP1_uc010nbg.2_Missense_Mutation_p.G427R	NM_015447	NP_056262	Q5T5Y3	CAMP1_HUMAN	calmodulin regulated spectrin-associated protein	705						cytoplasm|microtubule				ovary(1)|central_nervous_system(1)|pancreas(1)	3				OV - Ovarian serous cystadenocarcinoma(145;1.4e-06)|Epithelial(140;1.11e-05)		TCGGCCCTGCCTACATGAAGG	0.567													10	24					0	0	0.006214	0	0	
QSOX2	169714	broad.mit.edu	37	9	139113754	139113754	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:139113754C>T	uc010nbi.2	-	6	747	c.709G>A	c.(709-711)GTG>ATG	p.V237M		NM_181701	NP_859052	Q6ZRP7	QSOX2_HUMAN	quiescin Q6 sulfhydryl oxidase 2 precursor	237					cell redox homeostasis	extracellular region|integral to membrane|nuclear membrane|plasma membrane	thiol oxidase activity			ovary(1)	1		Myeloproliferative disorder(178;0.0511)		Epithelial(140;7.78e-08)|OV - Ovarian serous cystadenocarcinoma(145;1.55e-07)		CGGGTCACCACGATGCTTTCA	0.517													24	60					0	0	0.003954	0	0	
SDCCAG3	10807	broad.mit.edu	37	9	139302298	139302298	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:139302298C>T	uc004chi.2	-	4	587	c.382G>A	c.(382-384)GCC>ACC	p.A128T	SDCCAG3_uc004chj.2_Missense_Mutation_p.A105T|SDCCAG3_uc004chk.2_Missense_Mutation_p.A55T|PMPCA_uc011mdy.1_5'Flank|PMPCA_uc010nbk.2_5'Flank|PMPCA_uc004chl.2_5'Flank|PMPCA_uc010nbl.2_5'Flank|PMPCA_uc011mdz.1_5'Flank	NM_001039707	NP_001034796	Q96C92	SDCG3_HUMAN	serologically defined colon cancer antigen 3	128						cytoplasm					0		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;8.18e-06)|Epithelial(140;9.31e-06)		ATTCTGCTGGCCGGATCCTCT	0.493													7	77					0	0	0.006214	0	0	
PMPCA	23203	broad.mit.edu	37	9	139311661	139311661	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:139311661G>A	uc004chl.2	+	7	897	c.892G>A	c.(892-894)GCC>ACC	p.A298T	PMPCA_uc010nbl.2_Missense_Mutation_p.A198T|PMPCA_uc011mdz.1_Missense_Mutation_p.A167T|PMPCA_uc004chm.1_Missense_Mutation_p.A48T|PMPCA_uc004chn.1_5'Flank	NM_015160	NP_055975	Q10713	MPPA_HUMAN	peptidase (mitochondrial processing) alpha	298					proteolysis	mitochondrial inner membrane|mitochondrial matrix	metalloendopeptidase activity|zinc ion binding				0		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;9.3e-06)|Epithelial(140;1.15e-05)		TGGGGGGATTGCCAAGGTGAA	0.612													6	19					0	0	0.004482	0	0	
SEC16A	9919	broad.mit.edu	37	9	139358156	139358156	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:139358156G>A	uc004chx.2	-	10	4792	c.4483C>T	c.(4483-4485)CGG>TGG	p.R1495W	SEC16A_uc004chv.3_Missense_Mutation_p.R885W|SEC16A_uc004chw.2_Missense_Mutation_p.R1495W|SEC16A_uc010nbn.2_Missense_Mutation_p.R1495W	NM_014866	NP_055681	O15027	SC16A_HUMAN	SEC16 homolog A	1317					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane					0		Myeloproliferative disorder(178;0.0511)		Epithelial(140;2.9e-06)|OV - Ovarian serous cystadenocarcinoma(145;5.88e-06)		GGGAACGCCCGCATCTCCTCC	0.627													16	36					0	0	0.007413	0	0	
NOTCH1	4851	broad.mit.edu	37	9	139391176	139391176	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:139391176C>T	uc004chz.2	-	34	7015	c.7015G>A	c.(7015-7017)GCC>ACC	p.A2339T		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	2339	Cytoplasmic (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		AGGGAGGGGGCCTGTGTGCTC	0.667			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			5	11					0	0	0.001168	0	0	
NOTCH1	4851	broad.mit.edu	37	9	139407576	139407576	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:139407576G>A	uc004chz.2	-	15	2364	c.2364C>T	c.(2362-2364)TGC>TGT	p.C788C	NOTCH1_uc004cia.1_Silent_p.C18C	NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	788	Extracellular (Potential).|EGF-like 20.				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		TGTTGGTCTGGCAGTTGGGAC	0.622			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			13	36					0	0	0.004007	0	0	
NOTCH1	4851	broad.mit.edu	37	9	139412321	139412321	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:139412321G>A	uc004chz.2	-	8	1324	c.1324C>T	c.(1324-1326)CAG>TAG	p.Q442*		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	442	Extracellular (Potential).|EGF-like 11; calcium-binding (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		GTGTAGCCCTGCAGACACTGG	0.652			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			8	15					0	0	0.000978	0	0	
PHPT1	29085	broad.mit.edu	37	9	139744537	139744537	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:139744537G>A	uc004cjp.2	+	3	855	c.233G>A	c.(232-234)CGC>CAC	p.R78H	PHPT1_uc011mei.1_Missense_Mutation_p.R78H|PHPT1_uc004cjq.3_Missense_Mutation_p.R78H|MAMDC4_uc004cjs.2_5'Flank|MAMDC4_uc011mej.1_5'Flank	NM_014172	NP_054891	Q9NRX4	PHP14_HUMAN	phosphohistidine phosphatase 1 isoform 3	78				R->A: Decreased affinity for substrate and reduced catalytic activity.		cytosol	phosphohistidine phosphatase activity|phosphoprotein phosphatase activity				0	all_cancers(76;0.0763)|all_epithelial(76;0.198)	Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;1.52e-05)|Epithelial(140;0.000171)		GGCGGCGGGCGCATCTCCCAC	0.637													7	28					0	0	0.006214	0	0	
ABCA2	20	broad.mit.edu	37	9	139912013	139912013	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:139912013G>A	uc011mem.1	-	16	2488	c.2340C>T	c.(2338-2340)AGC>AGT	p.S780S	ABCA2_uc011mel.1_Silent_p.S781S|ABCA2_uc004ckl.1_Silent_p.S711S|ABCA2_uc004ckm.1_Silent_p.S811S|ABCA2_uc004ckn.1_RNA	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	780					cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		TGACCACGTGGCTGTGCATAA	0.612													12	22					0	0	0.002450	0	0	
MAN1B1	11253	broad.mit.edu	37	9	139996028	139996028	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:139996028G>A	uc004cld.2	+	8	1193	c.1158G>A	c.(1156-1158)CCG>CCA	p.P386P	MAN1B1_uc004clc.2_Silent_p.P287P|MAN1B1_uc011meo.1_Silent_p.P287P|MAN1B1_uc011mep.1_Silent_p.P386P|MAN1B1_uc010ncc.2_RNA|MAN1B1_uc004clf.1_5'Flank	NM_016219	NP_057303	Q9UKM7	MA1B1_HUMAN	alpha 1,2-mannosidase	386	Lumenal (Potential).				oligosaccharide metabolic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|endoplasmic reticulum quality control compartment|integral to membrane	alpha-mannosidase activity|calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			ovary(1)|central_nervous_system(1)	2	all_cancers(76;0.0926)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.0878)	OV - Ovarian serous cystadenocarcinoma(145;3.08e-05)|Epithelial(140;0.000513)		TTGCCCACCCGCCACGGTGGA	0.542													10	16					0	0	0.008291	0	0	
MAN1B1	11253	broad.mit.edu	37	9	140002935	140002935	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:140002935G>A	uc004cld.2	+	13	2027	c.1992G>A	c.(1990-1992)ACG>ACA	p.T664T	MAN1B1_uc011mep.1_3'UTR|MAN1B1_uc010ncc.2_RNA|MAN1B1_uc004clf.1_Silent_p.T337T|MAN1B1_uc004clg.1_RNA	NM_016219	NP_057303	Q9UKM7	MA1B1_HUMAN	alpha 1,2-mannosidase	664	Lumenal (Potential).				oligosaccharide metabolic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|endoplasmic reticulum quality control compartment|integral to membrane	alpha-mannosidase activity|calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			ovary(1)|central_nervous_system(1)	2	all_cancers(76;0.0926)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.0878)	OV - Ovarian serous cystadenocarcinoma(145;3.08e-05)|Epithelial(140;0.000513)		TGGGGGAGACGCTCAAGTATC	0.562													37	129					0	0	0.009718	0	0	
ZMYND19	116225	broad.mit.edu	37	9	140481457	140481457	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:140481457G>A	uc004cno.1	-	4	543	c.321C>T	c.(319-321)GGC>GGT	p.G107G		NM_138462	NP_612471	Q96E35	ZMY19_HUMAN	zinc finger, MYND domain containing 19	107						Golgi apparatus|plasma membrane	zinc ion binding			skin(1)	1	all_cancers(76;0.106)			OV - Ovarian serous cystadenocarcinoma(145;0.000275)|Epithelial(140;0.00047)		TGGGCCGCCAGCCCCACGGCA	0.677													9	18					0	0	0.008291	0	0	
EHMT1	79813	broad.mit.edu	37	9	140672491	140672491	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:140672491G>A	uc011mfc.1	+	13	2213	c.2176G>A	c.(2176-2178)GCC>ACC	p.A726T	EHMT1_uc004coa.2_Missense_Mutation_p.A726T|EHMT1_uc004cob.1_Missense_Mutation_p.A695T	NM_024757	NP_079033	Q9H9B1	EHMT1_HUMAN	euchromatic histone-lysine N-methyltransferase 1	726					DNA methylation|embryo development|peptidyl-lysine dimethylation|peptidyl-lysine monomethylation	chromosome|nucleus	histone methyltransferase activity (H3-K27 specific)|histone methyltransferase activity (H3-K9 specific)|p53 binding|zinc ion binding			breast(2)|pancreas(1)	3	all_cancers(76;0.164)			OV - Ovarian serous cystadenocarcinoma(145;0.000183)|Epithelial(140;0.000728)		CGCTCTCATCGCCCTCGACTC	0.562													22	20					0	0	0.003954	0	0	
Unknown	0	broad.mit.edu	37	MT	10883	10883	+	RNA	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrM:10883T>C	uc004cov.3	+	1		c.306T>C			uc004cow.1_5'Flank|uc004cox.3_5'Flank					Homo sapiens potential LAG1 interactor mRNA, partial cds.																		CCCTACTATTTTTTAACCAAA	0.413													175	613					0	0	0.003610	0	0	
CSF2RA	1438	broad.mit.edu	37	X	1422885	1422885	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:1422885G>A	uc010nct.2	+	12	1338	c.1016G>A	c.(1015-1017)GGC>GAC	p.G339D	CSF2RA_uc011mhb.1_Missense_Mutation_p.G339D|CSF2RA_uc004cpq.2_Intron|CSF2RA_uc004cpn.2_Missense_Mutation_p.G339D|CSF2RA_uc004cpo.2_Missense_Mutation_p.G339D|CSF2RA_uc010ncu.2_RNA|CSF2RA_uc011mhc.1_Missense_Mutation_p.G206D|CSF2RA_uc004cpp.2_Intron|CSF2RA_uc010ncv.2_Missense_Mutation_p.G373D|CSF2RA_uc004cpr.2_Intron	NM_001161529	NP_001155001	P15509	CSF2R_HUMAN	colony stimulating factor 2 receptor alpha chain	339	Helical; (Potential).					extracellular region|integral to plasma membrane	cytokine receptor activity			ovary(2)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Sargramostim(DB00020)	CTTGTCTGTGGCATCGTCCTC	0.547													11	150					0	0	0.001368	0	0	
IL3RA	3563	broad.mit.edu	37	X	1471219	1471219	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:1471219C>T	uc004cps.2	+	6	785	c.436C>T	c.(436-438)CGT>TGT	p.R146C	IL3RA_uc011mhd.1_Missense_Mutation_p.R68C	NM_002183	NP_002174	P26951	IL3RA_HUMAN	interleukin 3 receptor, alpha precursor	146	Extracellular (Potential).					integral to membrane|plasma membrane	interleukin-3 receptor activity			skin(2)|lung(1)	3		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Sargramostim(DB00020)	CCGCAGCAGGCGTCAACAGTA	0.597													54	73					0	0	0.003610	0	0	
SLC25A6	293	broad.mit.edu	37	X	1505554	1505554	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:1505554G>A	uc004cpt.2	-	4	934	c.838C>T	c.(838-840)CGG>TGG	p.R280W	SLC25A6_uc004cpu.2_RNA	NM_001636	NP_001627	P12236	ADT3_HUMAN	adenine nucleotide translocator 3	280	Helical; Name=6; (By similarity).|Solcar 3.				active induction of host immune response by virus|apoptosis|energy reserve metabolic process|regulation of insulin secretion|viral infectious cycle	integral to membrane|mitochondrial inner membrane presequence translocase complex	ATP:ADP antiporter activity|protein binding				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Clodronate(DB00720)	CCCATGCCCCGCAGGACGTTG	0.607													18	42					0	0	0.002299	0	0	
SFRS17A	8227	broad.mit.edu	37	X	1712430	1712430	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:1712430G>A	uc004cqa.2	+	2	271	c.75G>A	c.(73-75)AAG>AAA	p.K25K	SFRS17A_uc010ncx.1_Silent_p.K25K|SFRS17A_uc004cqb.2_RNA|ASMT_uc004cqd.2_5'Flank	NM_005088	NP_005079	Q02040	AK17A_HUMAN	DNA segment on chromosome X and Y (unique) 155	25					B cell activation|mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|signal transduction	nuclear speck|spliceosomal complex	nucleotide binding|protein binding|RNA binding				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				TGTACCTGAAGCCCATCACCA	0.617													16	24					0	0	0.003163	0	0	
ZBED1	9189	broad.mit.edu	37	X	2408097	2408097	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:2408097C>T	uc004cqg.2	-	2	865	c.664G>A	c.(664-666)GCC>ACC	p.A222T	DHRSX_uc004cqf.3_Intron|ZBED1_uc004cqh.1_Missense_Mutation_p.A222T	NM_004729	NP_004720	O96006	ZBED1_HUMAN	zinc finger, BED-type containing 1	222						nuclear chromosome	DNA binding|metal ion binding|protein dimerization activity|transposase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CAGTTGGGGGCGCCCAGGCCC	0.647													11	18					0	0	0.000978	0	0	
TBL1X	6907	broad.mit.edu	37	X	9656277	9656277	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:9656277C>T	uc010ndq.2	+	7	946	c.578C>T	c.(577-579)GCC>GTC	p.A193V	TBL1X_uc004csq.3_Missense_Mutation_p.A142V|TBL1X_uc010ndr.2_Missense_Mutation_p.A142V|TBL1X_uc004csr.2_Missense_Mutation_p.A193V|TBL1X_uc004css.2_Missense_Mutation_p.A144V	NM_001139466	NP_001132938	O60907	TBL1X_HUMAN	transducin beta-like 1X isoform a	193					canonical Wnt receptor signaling pathway|cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|proteasomal ubiquitin-dependent protein catabolic process|sensory perception of sound|transcription, DNA-dependent	spindle microtubule|transcriptional repressor complex	beta-catenin binding|histone binding|protein C-terminus binding|protein domain specific binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(1)	1		Hepatocellular(5;0.000888)				AACAGAGAGGCCACGGTGAAT	0.433													3	4					0	0	0.009096	0	0	
WWC3	55841	broad.mit.edu	37	X	10085205	10085205	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:10085205G>A	uc004csx.3	+	11	1304	c.1106G>A	c.(1105-1107)CGC>CAC	p.R369H	WWC3_uc010nds.2_Missense_Mutation_p.R33H|WWC3_uc010ndt.2_RNA	NM_015691	NP_056506	Q9ULE0	WWC3_HUMAN	WWC family member 3	369	Ser-rich.									ovary(4)	4						GGGAGCAGCCGCGGGTCCCTA	0.662													11	4					0	0	0.002450	0	0	
WWC3	55841	broad.mit.edu	37	X	10092342	10092342	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:10092342G>A	uc004csx.3	+	13	1987	c.1789G>A	c.(1789-1791)GCC>ACC	p.A597T	WWC3_uc010nds.2_Missense_Mutation_p.A261T|WWC3_uc010ndt.2_RNA	NM_015691	NP_056506	Q9ULE0	WWC3_HUMAN	WWC family member 3	597										ovary(4)	4						CGGAGACACGGCCAGTAACGG	0.597													8	32					0	0	0.004482	0	0	
MID1	4281	broad.mit.edu	37	X	10535114	10535114	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:10535114G>A	uc004cte.3	-	2	665	c.474C>T	c.(472-474)GGC>GGT	p.G158G	MID1_uc004ctd.3_5'Flank|MID1_uc004ctg.3_Silent_p.G158G|MID1_uc004cth.3_Silent_p.G158G|MID1_uc004ctk.3_Silent_p.G158G|MID1_uc004cti.3_Silent_p.G158G|MID1_uc004ctj.3_Silent_p.G158G|MID1_uc011mie.1_RNA|MID1_uc004ctm.1_Silent_p.G158G|MID1_uc004ctn.1_Silent_p.G158G|MID1_uc004cto.1_Silent_p.G158G|MID1_uc010ndw.1_5'Flank|MID1_uc004cts.1_5'Flank|MID1_uc004ctt.2_Silent_p.G158G|MID1_uc004ctu.2_Silent_p.G158G|MID1_uc004ctv.2_Silent_p.G158G|MID1_uc004ctw.2_Silent_p.G158G|MID1_uc010ndy.1_Silent_p.G158G|uc010ndz.1_5'Flank|MID1_uc004cty.2_Silent_p.G158G|MID1_uc004ctz.1_5'Flank|MID1_uc004cua.1_RNA|MID1_uc004cub.1_Silent_p.G158G|MID1_uc010nea.1_Intron|MID1_uc004cuc.1_Silent_p.G158G|MID1_uc004cud.1_Silent_p.G158G|MID1_uc004cue.1_Silent_p.G158G|MID1_uc004cuf.1_Silent_p.G158G|MID1_uc004cug.1_Silent_p.G158G	NM_033290	NP_150632	O15344	TRI18_HUMAN	midline 1	158	B box-type 1.				microtubule cytoskeleton organization|pattern specification process|positive regulation of stress-activated MAPK cascade	cytoplasm|microtubule|microtubule associated complex|spindle	ligase activity|ubiquitin protein ligase binding|zinc ion binding			ovary(2)|pancreas(1)	3						TCAGACGATGGCCTGTAAAGG	0.522													21	18					0	0	0.001882	0	0	
FRMPD4	9758	broad.mit.edu	37	X	12712493	12712493	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:12712493T>C	uc004cuz.1	+	9	1359	c.853T>C	c.(853-855)TTC>CTC	p.F285L	FRMPD4_uc011mij.1_Missense_Mutation_p.F277L	NM_014728	NP_055543	Q14CM0	FRPD4_HUMAN	FERM and PDZ domain containing 4	285	FERM.				positive regulation of synapse structural plasticity	cytoskeleton|dendritic spine	phosphatidylinositol-4,5-bisphosphate binding|protein binding			central_nervous_system(5)|ovary(3)|skin(2)|large_intestine(1)|lung(1)|pancreas(1)	13						GAGATGTCTTTTCCGAATTAG	0.438													14	22					0	0	0.001855	0	0	
FRMPD4	9758	broad.mit.edu	37	X	12736508	12736508	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:12736508C>T	uc004cuz.1	+	16	4069	c.3563C>T	c.(3562-3564)GCC>GTC	p.A1188V	FRMPD4_uc011mij.1_Missense_Mutation_p.A1180V	NM_014728	NP_055543	Q14CM0	FRPD4_HUMAN	FERM and PDZ domain containing 4	1188					positive regulation of synapse structural plasticity	cytoskeleton|dendritic spine	phosphatidylinositol-4,5-bisphosphate binding|protein binding			central_nervous_system(5)|ovary(3)|skin(2)|large_intestine(1)|lung(1)|pancreas(1)	13						GAGAGTGTGGCCCGCCTTTGT	0.552													13	78					0	0	0.003163	0	0	
TLR7	51284	broad.mit.edu	37	X	12905875	12905875	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:12905875C>T	uc004cvc.2	+	3	2387	c.2248C>T	c.(2248-2250)CGA>TGA	p.R750*		NM_016562	NP_057646	Q9NYK1	TLR7_HUMAN	toll-like receptor 7 precursor	750	Extracellular (Potential).|LRR 26.				cellular response to mechanical stimulus|defense response to virus|I-kappaB phosphorylation|inflammatory response|innate immune response|positive regulation of chemokine production|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus	early phagosome|endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosome|plasma membrane	double-stranded RNA binding|single-stranded RNA binding|siRNA binding|transmembrane receptor activity			ovary(2)|lung(2)|breast(1)	5					Imiquimod(DB00724)	CTTCCAGTTGCGATATCTGGA	0.383													27	27					0	0	0.004656	0	0	
OFD1	8481	broad.mit.edu	37	X	13786260	13786260	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:13786260G>A	uc004cvp.3	+	21	3204	c.2845G>A	c.(2845-2847)GAC>AAC	p.D949N	OFD1_uc004cvr.3_Missense_Mutation_p.D479N|OFD1_uc011mil.1_Missense_Mutation_p.D516N|OFD1_uc004cvq.3_Missense_Mutation_p.D772N|OFD1_uc010nen.2_Missense_Mutation_p.D947N|OFD1_uc004cvs.3_RNA|OFD1_uc004cvu.3_Missense_Mutation_p.D908N|OFD1_uc004cvv.3_Missense_Mutation_p.D907N	NM_003611	NP_003602	O75665	OFD1_HUMAN	oral-facial-digital syndrome 1	949	Mediates the interaction with SDCCAG8.|Potential.				cilium movement involved in determination of left/right asymmetry|G2/M transition of mitotic cell cycle	centriole|cilium|cytosol|microtubule basal body|nuclear membrane	alpha-tubulin binding|gamma-tubulin binding				0						AGAAATAAAAGACAAATCTGC	0.358													18	15					0	0	0.008871	0	0	
TXLNG	55787	broad.mit.edu	37	X	16838287	16838287	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:16838287G>T	uc004cxq.1	+	3	458	c.407G>T	c.(406-408)GGA>GTA	p.G136V	TXLNG_uc010ney.1_Intron	NM_018360	NP_060830	Q9NUQ3	TXLNG_HUMAN	gamma-taxilin	136					cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nuclear membrane				lung(1)	1						TAACCATCAGGAAAAGAAGTT	0.388													6	133					5.9392e-07	6.31025e-07	0.001168	1	0	
NHS	4810	broad.mit.edu	37	X	17746817	17746817	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:17746817C>A	uc004cxx.2	+	7	4546	c.4208C>A	c.(4207-4209)TCC>TAC	p.S1403Y	NHS_uc011mix.1_Missense_Mutation_p.S1424Y|NHS_uc004cxy.2_Missense_Mutation_p.S1247Y|NHS_uc004cxz.2_Missense_Mutation_p.S1226Y|NHS_uc004cya.2_Missense_Mutation_p.S1126Y	NM_198270	NP_938011	Q6T4R5	NHS_HUMAN	Nance-Horan syndrome protein isoform 1	1403						nucleus				skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	Hepatocellular(33;0.183)					AGTGAAGACTCCCAAGCTGAA	0.433													27	39					1.12875e-08	1.20787e-08	0.006320	1	0	
SCML2	10389	broad.mit.edu	37	X	18278348	18278348	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:18278348G>A	uc004cyl.2	-	9	1169	c.1012C>T	c.(1012-1014)CGT>TGT	p.R338C	SCML2_uc004cyk.3_RNA|SCML2_uc010nfd.1_Missense_Mutation_p.R338C|SCML2_uc011miz.1_Missense_Mutation_p.R272C|SCML2_uc010nfc.2_Missense_Mutation_p.R74C	NM_006089	NP_006080	Q9UQR0	SCML2_HUMAN	sex comb on midleg-like 2	338					anatomical structure morphogenesis	PcG protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0	Hepatocellular(33;0.183)					AACATGCCACGGTCTCTGGTC	0.338													4	25					0	0	0.001168	0	0	
CDKL5	6792	broad.mit.edu	37	X	18668576	18668576	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:18668576C>T	uc004cym.2	+	20	3097	c.2844C>T	c.(2842-2844)TGC>TGT	p.C948C	CDKL5_uc004cyn.2_Silent_p.C948C|RS1_uc004cyo.2_Intron	NM_003159	NP_003150	O76039	CDKL5_HUMAN	cyclin-dependent kinase-like 5	948					neuron migration|positive regulation of axon extension|positive regulation of dendrite morphogenesis|positive regulation of Rac GTPase activity|protein autophosphorylation	dendrite cytoplasm|dendritic growth cone|nucleus	ATP binding|cyclin-dependent protein kinase activity|Rac GTPase binding			ovary(2)|large_intestine(1)|stomach(1)|central_nervous_system(1)|skin(1)	6	Hepatocellular(33;0.183)					ACACTCCGTGCGTCCCAAACC	0.577													4	46					0	0	0.009096	0	0	
PPEF1	5475	broad.mit.edu	37	X	18824564	18824564	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:18824564G>A	uc004cyq.2	+	15	1776	c.1295G>A	c.(1294-1296)AGC>AAC	p.S432N	PPEF1_uc004cyp.2_Missense_Mutation_p.S404N|PPEF1_uc004cyr.2_Missense_Mutation_p.S370N|PPEF1_uc004cys.2_Missense_Mutation_p.S432N|PPEF1_uc011mja.1_Missense_Mutation_p.S367N|PPEF1_uc011mjb.1_Missense_Mutation_p.S376N	NM_006240	NP_006231	O14829	PPE1_HUMAN	protein phosphatase with EF hand calcium-binding	432	Catalytic.				detection of stimulus involved in sensory perception|protein dephosphorylation		calcium ion binding|iron ion binding|manganese ion binding|protein binding|protein serine/threonine phosphatase activity				0	Hepatocellular(33;0.183)					GAAGAAGGCAGCAATCGAGGA	0.403													11	75					0	0	0.008291	0	0	
PHKA2	5256	broad.mit.edu	37	X	18927018	18927018	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:18927018T>C	uc004cyv.3	-	21	2691	c.2261A>G	c.(2260-2262)GAC>GGC	p.D754G	PHKA2_uc004cyu.3_Missense_Mutation_p.D52G	NM_000292	NP_000283	P46019	KPB2_HUMAN	phosphorylase kinase, alpha 2 (liver)	754					glucose metabolic process|glycogen catabolic process	cytosol|phosphorylase kinase complex|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity|phosphorylase kinase activity			ovary(1)|central_nervous_system(1)	2	Hepatocellular(33;0.183)					GTCACCATGGTCATCTCTGGG	0.463													10	138					0	0	0.001368	0	0	
PDHA1	5160	broad.mit.edu	37	X	19372612	19372612	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:19372612C>T	uc004czg.3	+	6	659	c.514C>T	c.(514-516)CCC>TCC	p.P172S	PDHA1_uc004czh.3_Missense_Mutation_p.P207S|PDHA1_uc011mjc.1_Missense_Mutation_p.P176S|PDHA1_uc011mjd.1_Intron|PDHA1_uc010nfk.2_Missense_Mutation_p.P169S|PDHA1_uc010nfl.2_5'Flank	NM_000284	NP_000275	P08559	ODPA_HUMAN	pyruvate dehydrogenase E1 alpha 1 precursor	172					glycolysis|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	protein binding|pyruvate dehydrogenase (acetyl-transferring) activity			ovary(1)	1	Hepatocellular(33;0.183)				NADH(DB00157)	ATGTTAGGTGCCCCTGGGCGC	0.468													6	42					0	0	0.001168	0	0	
SH3KBP1	30011	broad.mit.edu	37	X	19560086	19560086	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:19560086G>A	uc004czm.2	-	16	2165	c.1849C>T	c.(1849-1851)CGC>TGC	p.R617C	SH3KBP1_uc011mje.1_Missense_Mutation_p.R356C|SH3KBP1_uc011mjf.1_Missense_Mutation_p.R379C|SH3KBP1_uc004czl.2_Missense_Mutation_p.R580C|SH3KBP1_uc010nfm.2_Missense_Mutation_p.R62C	NM_031892	NP_114098	Q96B97	SH3K1_HUMAN	SH3-domain kinase binding protein 1 isoform a	617	Potential.				apoptosis|cell-cell signaling|endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	cytoplasmic vesicle membrane|cytoskeleton|cytosol|focal adhesion|nucleus|synapse|synaptosome	SH3 domain binding				0						CTCAGCTCGCGGACCTGTGTC	0.632													37	10					0	0	0.002852	0	0	
SH3KBP1	30011	broad.mit.edu	37	X	19649997	19649997	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:19649997G>A	uc004czm.2	-	8	1198	c.882C>T	c.(880-882)GTC>GTT	p.V294V	SH3KBP1_uc011mje.1_Silent_p.V33V|SH3KBP1_uc011mjf.1_Silent_p.V56V|SH3KBP1_uc004czl.2_Silent_p.V257V	NM_031892	NP_114098	Q96B97	SH3K1_HUMAN	SH3-domain kinase binding protein 1 isoform a	294	SH3 3.				apoptosis|cell-cell signaling|endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	cytoplasmic vesicle membrane|cytoskeleton|cytosol|focal adhesion|nucleus|synapse|synaptosome	SH3 domain binding				0						TGATGAGAGTGACTATATCTC	0.378													8	53					0	0	0.003080	0	0	
PTCHD1	139411	broad.mit.edu	37	X	23397938	23397938	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:23397938C>T	uc004dal.3	+	2	590	c.582C>T	c.(580-582)GGC>GGT	p.G194G	PTCHD1_uc010nfu.1_Silent_p.G194G	NM_173495	NP_775766	Q96NR3	PTHD1_HUMAN	patched domain containing 1	194					cognition|smoothened signaling pathway	integral to membrane|plasma membrane	hedgehog receptor activity			ovary(4)|kidney(1)|skin(1)	6						AGCTTGGGGGCGTCACTGTGC	0.527													45	40					0	0	0.003610	0	0	
PDK3	5165	broad.mit.edu	37	X	24552101	24552101	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:24552101G>A	uc004dbg.2	+	11	1362	c.1133G>A	c.(1132-1134)CGC>CAC	p.R378H	PDK3_uc004dbh.2_Missense_Mutation_p.R378H	NM_005391	NP_005382	Q15120	PDK3_HUMAN	pyruvate dehydrogenase kinase 3 isoform 2	378					glucose metabolic process|peptidyl-histidine phosphorylation|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	ATP binding|protein binding|pyruvate dehydrogenase (acetyl-transferring) kinase activity|two-component sensor activity			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6						TCCGCATGGCGCCATTACAAG	0.428													11	14					0	0	0.001368	0	0	
PCYT1B	9468	broad.mit.edu	37	X	24608151	24608151	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:24608151C>T	uc004dbi.2	-	4	708	c.475G>A	c.(475-477)GAA>AAA	p.E159K	PCYT1B_uc004dbk.3_Missense_Mutation_p.E159K|PCYT1B_uc004dbj.2_Missense_Mutation_p.E141K	NM_004845	NP_004836	Q9Y5K3	PCY1B_HUMAN	choline phosphate cytidylyltransferase 1 beta	159	Catalytic (Potential).					endoplasmic reticulum	choline-phosphate cytidylyltransferase activity				0					Choline(DB00122)	TTGTGTTTTTCCAGAAACTCT	0.483													4	13					0	0	0.009096	0	0	
PCYT1B	9468	broad.mit.edu	37	X	24690692	24690692	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:24690692G>A	uc004dbj.2	-	1	288	c.58C>T	c.(58-60)CGC>TGC	p.R20C		NM_001163264	NP_001156736	Q9Y5K3	PCY1B_HUMAN	choline phosphate cytidylyltransferase 1 beta	38						endoplasmic reticulum	choline-phosphate cytidylyltransferase activity				0					Choline(DB00122)	ATTACCTTGCGCCACAATTGG	0.413													6	48					0	0	0.001984	0	0	
DCAF8L2	347442	broad.mit.edu	37	X	27766835	27766835	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:27766835C>T	uc011mjy.1	+	1	1910	c.1823C>T	c.(1822-1824)TCG>TTG	p.S608L		NM_001136533	NP_001130005			DDB1 and CUL4 associated factor 8-like 2											central_nervous_system(1)|pancreas(1)	2						GATGAAGAATCGGATGAGTCT	0.522													3	8					0	0	0.004672	0	0	
DCAF8L1	139425	broad.mit.edu	37	X	27997832	27997832	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:27997832C>T	uc004dbx.1	-	1	1735	c.1620G>A	c.(1618-1620)ACG>ACA	p.T540T		NM_001017930	NP_001017930	A6NGE4	DC8L1_HUMAN	DDB1 and CUL4 associated factor 8-like 1	540										ovary(3)|skin(1)	4						CAAACGAGTCCGTATAGTTCA	0.488													7	51					0	0	0.006214	0	0	
TAB3	257397	broad.mit.edu	37	X	30872570	30872570	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:30872570C>T	uc004dcj.2	-	6	1875	c.1212G>A	c.(1210-1212)ACG>ACA	p.T404T	TAB3_uc004dck.2_Silent_p.T404T|TAB3_uc010ngl.2_Silent_p.T404T	NM_152787	NP_690000	Q8N5C8	TAB3_HUMAN	mitogen-activated protein kinase kinase kinase 7	404	Pro-rich.				activation of MAPK activity|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	protein binding|zinc ion binding			ovary(1)	1						TTGAAGGTGGCGTGGTGGCTG	0.433													9	81					0	0	0.001368	0	0	
TAB3	257397	broad.mit.edu	37	X	30877628	30877628	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:30877628G>A	uc004dcj.2	-	5	741	c.78C>T	c.(76-78)GGC>GGT	p.G26G	TAB3_uc004dck.2_Silent_p.G26G|TAB3_uc010ngl.2_Silent_p.G26G	NM_152787	NP_690000	Q8N5C8	TAB3_HUMAN	mitogen-activated protein kinase kinase kinase 7	26	CUE.				activation of MAPK activity|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	protein binding|zinc ion binding			ovary(1)	1						GAGACACCACGCCCTCTGGAA	0.448													11	13					0	0	0.000978	0	0	
FAM47C	442444	broad.mit.edu	37	X	37028325	37028325	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:37028325C>T	uc004ddl.1	+	1	1856	c.1842C>T	c.(1840-1842)CGC>CGT	p.R614R		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	614										ovary(3)	3						CAGAGACTCGCGTATCTCATC	0.652													5	22					0	0	0.001168	0	0	
FAM47C	442444	broad.mit.edu	37	X	37028757	37028757	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:37028757C>T	uc004ddl.1	+	1	2288	c.2274C>T	c.(2272-2274)CGC>CGT	p.R758R		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	758										ovary(3)	3						TTGAGACTCGCGTATCTCATC	0.632													24	20					0	0	0.003954	0	0	
CYBB	1536	broad.mit.edu	37	X	37663265	37663265	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:37663265G>A	uc004ddr.2	+	9	1094	c.1033G>A	c.(1033-1035)GCC>ACC	p.A345T	CYBB_uc011mke.1_RNA|CYBB_uc011mkf.1_Missense_Mutation_p.A313T|CYBB_uc011mkg.1_Missense_Mutation_p.A78T	NM_000397	NP_000388	P04839	CY24B_HUMAN	cytochrome b-245 beta polypeptide	345	Cytoplasmic (Potential).|FAD-binding FR-type.				electron transport chain|inflammatory response|innate immune response|respiratory burst|superoxide anion generation	NADPH oxidase complex	electron carrier activity|flavin adenine dinucleotide binding|heme binding|protein heterodimerization activity|superoxide-generating NADPH oxidase activity|voltage-gated ion channel activity			central_nervous_system(1)|skin(1)	2						ACTGACATCCGCCCCTGAGGA	0.483													24	19					0	0	0.003954	0	0	
MID1IP1	58526	broad.mit.edu	37	X	38664476	38664476	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:38664476C>T	uc004dei.3	+	3	701	c.277C>T	c.(277-279)CTT>TTT	p.L93F	MID1IP1_uc010ngz.2_Missense_Mutation_p.L93F|MID1IP1_uc004dej.3_Missense_Mutation_p.L93F	NM_001098790	NP_001092260	Q9NPA3	M1IP1_HUMAN	MID1 interacting G12-like protein	93					lipid biosynthetic process|negative regulation of microtubule depolymerization|positive regulation of fatty acid biosynthetic process|positive regulation of ligase activity|protein polymerization	cytosol|microtubule|nucleus					0						CCACTACGTGCTTCTCAAGTC	0.657													12	6					0	0	0.006122	0	0	
BCOR	54880	broad.mit.edu	37	X	39932705	39932705	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:39932705C>T	uc004den.3	-	4	2186	c.1894G>A	c.(1894-1896)GGC>AGC	p.G632S	BCOR_uc004dep.3_Missense_Mutation_p.G632S|BCOR_uc004deo.3_Missense_Mutation_p.G632S|BCOR_uc004dem.3_Missense_Mutation_p.G632S|BCOR_uc004deq.3_Missense_Mutation_p.G632S	NM_001123385	NP_001116857	Q6W2J9	BCOR_HUMAN	BCL-6 interacting corepressor isoform c	632					heart development|histone H2A monoubiquitination|negative regulation of bone mineralization|negative regulation of histone H3-K36 methylation|negative regulation of histone H3-K4 methylation|negative regulation of tooth mineralization|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|specification of axis polarity|transcription, DNA-dependent	nucleus	heat shock protein binding|histone deacetylase binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4						GGTGGAAGGCCGTTCTCGTTT	0.587													15	19					0	0	0.004990	0	0	
DUSP21	63904	broad.mit.edu	37	X	44703683	44703683	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:44703683C>T	uc004dgd.2	+	1	435	c.305C>T	c.(304-306)ACG>ATG	p.T102M		NM_022076	NP_071359	Q9H596	DUS21_HUMAN	dual specificity phosphatase 21	102	Tyrosine-protein phosphatase.|Sufficient for mitochondrial localization (By similarity).					cytoplasm|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			large_intestine(1)|lung(1)	2						CAGGGCCGTACGCTGCTGCAC	0.547													6	30					0	0	0.001984	0	0	
ELK1	2002	broad.mit.edu	37	X	47500653	47500653	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:47500653G>A	uc004dik.3	-	3	510	c.188C>T	c.(187-189)GCC>GTC	p.A63V	ELK1_uc010nhv.2_Missense_Mutation_p.A63V|ELK1_uc010nhw.2_5'UTR|ELK1_uc004dil.3_RNA	NM_001114123	NP_001107595	P19419	ELK1_HUMAN	ELK1 protein	63	ETS.				innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway		protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2						GTACCGCAAGGCCCGGCTGAG	0.502													5	21					0	0	0.001168	0	0	
ZNF630	57232	broad.mit.edu	37	X	47926265	47926265	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:47926265A>G	uc004div.3	-	2	262	c.10T>C	c.(10-12)TCC>CCC	p.S4P	ZNF630_uc010nhz.1_RNA|ZNF630_uc004diw.2_5'UTR	NM_001037735	NP_001032824	Q2M218	ZN630_HUMAN	zinc finger protein 630	4					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|lung(1)	2						CTTACCTGGGACTCAATCATT	0.318													5	38					0	0	0.001168	0	0	
GRIPAP1	56850	broad.mit.edu	37	X	48832466	48832466	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:48832466C>T	uc004dly.1	-	24	2277	c.2242G>A	c.(2242-2244)GCC>ACC	p.A748T		NM_020137	NP_064522	Q4V328	GRAP1_HUMAN	GRIP1 associated protein 1 isoform 1	748						early endosome				breast(2)|kidney(1)	3						TCAATGATGGCGCTCTTCCGG	0.617													13	11					0	0	0.003163	0	0	
SHROOM4	57477	broad.mit.edu	37	X	50339874	50339874	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:50339874C>T	uc004dpe.2	-	9	4329	c.4303G>A	c.(4303-4305)GTG>ATG	p.V1435M	SHROOM4_uc004dpd.3_RNA	NM_020717	NP_065768	Q9ULL8	SHRM4_HUMAN	shroom family member 4	1435	Potential.|ASD2.				actin filament organization|brain development|cell morphogenesis|cognition	apical plasma membrane|basal plasma membrane|internal side of plasma membrane|nucleus	actin filament binding			upper_aerodigestive_tract(1)	1	Ovarian(276;0.236)					ATGCCAAACACCAACTTCTCC	0.547													4	16					0	0	0.000602	0	0	
BMP15	9210	broad.mit.edu	37	X	50659440	50659440	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:50659440G>A	uc011mnw.1	+	2	1012	c.1012G>A	c.(1012-1014)GCC>ACC	p.A338T		NM_005448	NP_005439	O95972	BMP15_HUMAN	bone morphogenetic protein 15 precursor	338					female gamete generation|granulosa cell development|ovarian follicle development	extracellular space	cytokine activity|growth factor activity			ovary(2)	2	Ovarian(276;0.236)					CCCCAATCACGCCATTATTCA	0.478													6	51					0	0	0.001168	0	0	
Unknown	0	broad.mit.edu	37	X	51150634	51150634	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:51150634G>A	uc004dpj.2	+	1	868	c.766G>A	c.(766-768)GCT>ACT	p.A256T		NM_203407	NP_981952			hypothetical protein LOC340602																		TCTAGACCCTGCTCGTCTAAG	0.687													5	1					0	0	0.000602	0	0	
GSPT2	23708	broad.mit.edu	37	X	51488078	51488078	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:51488078C>T	uc004dpl.2	+	1	1582	c.1356C>T	c.(1354-1356)TCC>TCT	p.S452S		NM_018094	NP_060564	Q8IYD1	ERF3B_HUMAN	peptide chain release factor 3	452					cell cycle|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|translational termination	cytoplasm	GTP binding|GTPase activity|protein binding			ovary(1)	1	Ovarian(276;0.236)					AGCTGGAATCCGGGTCCATTT	0.418													16	17					0	0	0.004007	0	0	
KDM5C	8242	broad.mit.edu	37	X	53247024	53247024	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:53247024C>T	uc004drz.2	-	4	1009	c.476G>A	c.(475-477)CGC>CAC	p.R159H	KDM5C_uc011moc.1_RNA|KDM5C_uc011mod.1_Missense_Mutation_p.R92H|KDM5C_uc004dsa.2_Missense_Mutation_p.R159H	NM_004187	NP_004178	P41229	KDM5C_HUMAN	jumonji, AT rich interactive domain 1C isoform	159	ARID.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			kidney(9)|ovary(5)|salivary_gland(1)|autonomic_ganglia(1)|haematopoietic_and_lymphoid_tissue(1)|oesophagus(1)	18						ATAAACAATGCGTTCGTAGTG	0.537			N|F|S		clear cell renal carcinoma								11	12					0	0	0.002450	0	0	
IQSEC2	23096	broad.mit.edu	37	X	53280263	53280263	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:53280263G>A	uc004dsd.2	-	5	1696	c.1495C>T	c.(1495-1497)CGG>TGG	p.R499W	IQSEC2_uc004dsc.2_Missense_Mutation_p.R294W	NM_001111125	NP_001104595	Q5JU85	IQEC2_HUMAN	IQ motif and Sec7 domain 2 isoform1	489					regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3						TTTGACTCCCGCTTCTCCAGC	0.572													22	22					0	0	0.003954	0	0	
HUWE1	10075	broad.mit.edu	37	X	53569478	53569478	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:53569478G>A	uc004dsp.2	-	74	11804	c.11402C>T	c.(11401-11403)GCG>GTG	p.A3801V	HUWE1_uc004dsn.2_Missense_Mutation_p.A2609V|HUWE1_uc004dsq.1_Missense_Mutation_p.A101V	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	3801					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						CCGGACAGACGCCTCTGACTG	0.517													5	26					0	0	0.006214	0	0	
HUWE1	10075	broad.mit.edu	37	X	53641546	53641546	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:53641546G>A	uc004dsp.2	-	23	2612	c.2210C>T	c.(2209-2211)GCC>GTC	p.A737V		NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	737					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						GCTCTGCATGGCCTGTACTTC	0.423													22	30					0	0	0.001882	0	0	
PHF8	23133	broad.mit.edu	37	X	54014219	54014219	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:54014219G>A	uc004dsu.2	-	15	2070	c.1997C>T	c.(1996-1998)GCG>GTG	p.A666V	PHF8_uc004dst.2_Missense_Mutation_p.A630V|PHF8_uc004dsv.2_Missense_Mutation_p.A496V|PHF8_uc004dsw.2_Missense_Mutation_p.A529V|PHF8_uc004dsx.2_Missense_Mutation_p.A394V|PHF8_uc004dsy.2_Missense_Mutation_p.A630V	NM_015107	NP_055922	Q9UPP1	PHF8_HUMAN	PHD finger protein 8	666					brain development|G1/S transition of mitotic cell cycle|negative regulation of chromatin silencing at rDNA|positive regulation of transcription from RNA polymerase I promoter|transcription, DNA-dependent	nucleolus	chromatin binding|histone demethylase activity (H3-K27 specific)|histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K9 specific)|histone demethylase activity (H4-K20 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(3)	3						TATCAGGGTCGCCTTCTCCTT	0.378													5	6					0	0	0.001168	0	0	
GNL3L	54552	broad.mit.edu	37	X	54584945	54584945	+	Missense_Mutation	SNP	G	A	A	rs145061026		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:54584945G>A	uc004dth.1	+	15	1662	c.1523G>A	c.(1522-1524)CGC>CAC	p.R508H	GNL3L_uc004dti.2_RNA	NM_019067	NP_061940	Q9NVN8	GNL3L_HUMAN	guanine nucleotide binding protein-like 3	508					ribosome biogenesis	nucleolus	GTP binding			ovary(1)	1						GTGGACCACCGCCCTAAGAGC	0.552													14	12					0	0	0.003163	0	0	
ITIH5L	347365	broad.mit.edu	37	X	54781451	54781451	+	Silent	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:54781451T>C	uc004dtj.2	-	9	3231	c.3201A>G	c.(3199-3201)AAA>AAG	p.K1067K		NM_198510	NP_940912	Q6UXX5	ITH5L_HUMAN	inter-alpha (globulin) inhibitor H5-like	1067					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			lung(2)|skin(2)|ovary(1)|breast(1)	6						CTTGCTCACCTTTTGCTAACC	0.488													7	32					0	0	0.003080	0	0	
TRO	7216	broad.mit.edu	37	X	54949812	54949812	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:54949812G>A	uc004dtq.2	+	3	954	c.847G>A	c.(847-849)GCA>ACA	p.A283T	TRO_uc011moj.1_Missense_Mutation_p.A226T|TRO_uc004dts.2_Missense_Mutation_p.A283T|TRO_uc004dtr.2_Missense_Mutation_p.A283T|TRO_uc004dtt.2_RNA|TRO_uc004dtu.2_Intron|TRO_uc004dtv.2_Intron|TRO_uc011mok.1_Intron|TRO_uc004dtw.2_Intron|TRO_uc004dtx.2_5'Flank	NM_001039705	NP_001034794	Q12816	TROP_HUMAN	trophinin isoform 5	283					embryo implantation|homophilic cell adhesion	integral to plasma membrane				ovary(1)	1						TGTCACTGACGCAGCTACCAG	0.498													9	6					0	0	0.004482	0	0	
USP51	158880	broad.mit.edu	37	X	55514472	55514472	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:55514472C>T	uc004dun.1	-	2	980	c.901G>A	c.(901-903)GCC>ACC	p.A301T	USP51_uc011moo.1_Intron	NM_201286	NP_958443	Q70EK9	UBP51_HUMAN	ubiquitin specific protease 51	301					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3						GTTTCTTTGGCAATCTGTTCT	0.343													23	23					0	0	0.002299	0	0	
AR	367	broad.mit.edu	37	X	66942787	66942787	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:66942787C>T	uc004dwu.1	+	7	3683	c.2568C>T	c.(2566-2568)CGC>CGT	p.R856R	AR_uc004dwv.1_Silent_p.R324R	NM_000044	NP_000035	P10275	ANDR_HUMAN	androgen receptor isoform 1	855	Ligand-binding.|Interaction with MYST2.		R -> C (in AIS).|R -> H (in AIS; strongly reduced transcription activation).		cell death|cell growth|cell proliferation|cell-cell signaling|negative regulation of apoptosis|negative regulation of integrin biosynthetic process|positive regulation of cell proliferation|positive regulation of integrin biosynthetic process|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|regulation of establishment of protein localization in plasma membrane|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transport	cytoplasm|nuclear chromatin|nucleoplasm	androgen binding|androgen receptor activity|beta-catenin binding|enzyme binding|ligand-regulated transcription factor activity|protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(3)|lung(2)|breast(2)|central_nervous_system(1)	8	all_cancers(1;0.173)|Prostate(1;2.27e-16)|all_epithelial(1;0.102)	all_lung(315;1.3e-11)			Bicalutamide(DB01128)|Cyproterone(DB04839)|Dromostanolone(DB00858)|Finasteride(DB01216)|Fluoxymesterone(DB01185)|Flutamide(DB00499)|Nandrolone(DB00984)|Nilutamide(DB00665)|Oxandrolone(DB00621)|Testosterone(DB00624)	GCTCAAGACGCTTCTACCAGC	0.433									Androgen_Insensitivity_Syndrome				17	16					0	0	0.010504	0	0	
PJA1	64219	broad.mit.edu	37	X	68382185	68382185	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:68382185G>A	uc004dxh.2	-	2	1183	c.897C>T	c.(895-897)GGC>GGT	p.G299G	PJA1_uc011mpi.1_Silent_p.G17G|PJA1_uc004dxg.2_Silent_p.G111G|PJA1_uc004dxi.2_Silent_p.G244G	NM_145119	NP_660095	Q8NG27	PJA1_HUMAN	praja 1 isoform a	299							zinc ion binding				0						CATCCGAGTGGCCCTCATTGT	0.502													11	25					0	0	0.001855	0	0	
KIF4A	24137	broad.mit.edu	37	X	69615826	69615826	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:69615826C>T	uc004dyg.2	+	22	2543	c.2416C>T	c.(2416-2418)CGT>TGT	p.R806C	KIF4A_uc010nkw.2_Missense_Mutation_p.R806C	NM_012310	NP_036442	O95239	KIF4A_HUMAN	kinesin family member 4	806	Potential.|Interaction with PRC1.				anterograde axon cargo transport|axon guidance|blood coagulation|organelle organization	chromosome|cytosol|midbody|nuclear matrix|spindle microtubule	ATP binding|DNA binding|microtubule motor activity|protein binding			ovary(4)	4						TACTGAAGTGCGTGGTCAAGT	0.398													18	26					0	0	0.008871	0	0	
SLC7A3	84889	broad.mit.edu	37	X	70149776	70149776	+	Silent	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:70149776A>C	uc004dyn.2	-	2	230	c.72T>G	c.(70-72)GCT>GCG	p.A24A	SLC7A3_uc004dyo.2_Silent_p.A24A	NM_032803	NP_116192	Q8WY07	CTR3_HUMAN	solute carrier family 7 (cationic amino acid	24	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process	integral to membrane|plasma membrane				ovary(1)|kidney(1)	2	Renal(35;0.156)				L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	GGCGAGTCTCAGCCATGCCTG	0.557													12	15					0	0	0.000978	0	0	
TAF1	6872	broad.mit.edu	37	X	70598858	70598858	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:70598858C>T	uc004dzu.3	+	8	1385	c.1334C>T	c.(1333-1335)GCG>GTG	p.A445V	BCYRN1_uc011mpt.1_Intron|TAF1_uc004dzt.3_Missense_Mutation_p.A466V	NM_138923	NP_620278	P21675	TAF1_HUMAN	TBP-associated factor 1 isoform 2	445					G1 phase of mitotic cell cycle|interspecies interaction between organisms|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription initiation from RNA polymerase II promoter|protein autophosphorylation|regulation of transcription involved in G2/M-phase of mitotic cell cycle|RNA polymerase II transcriptional preinitiation complex assembly|transcription elongation from RNA polymerase II promoter|viral reproduction	MLL1 complex|transcription factor TFIID complex	ATP binding|histone acetyl-lysine binding|histone acetyltransferase activity|p53 binding|protein binding|protein serine/threonine kinase activity|sequence-specific DNA binding|TBP-class protein binding|transcription coactivator activity			ovary(7)|breast(4)|large_intestine(2)|central_nervous_system(2)|lung(1)|skin(1)	17	Renal(35;0.156)	all_lung(315;0.000321)				ACTAGGAATGCGATGGCTTAC	0.493													7	59					0	0	0.001984	0	0	
TAF1	6872	broad.mit.edu	37	X	70603863	70603863	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:70603863C>T	uc004dzu.3	+	13	2047	c.1996C>T	c.(1996-1998)CGC>TGC	p.R666C	BCYRN1_uc011mpt.1_Intron|TAF1_uc004dzt.3_Missense_Mutation_p.R687C	NM_138923	NP_620278	P21675	TAF1_HUMAN	TBP-associated factor 1 isoform 2	666					G1 phase of mitotic cell cycle|interspecies interaction between organisms|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription initiation from RNA polymerase II promoter|protein autophosphorylation|regulation of transcription involved in G2/M-phase of mitotic cell cycle|RNA polymerase II transcriptional preinitiation complex assembly|transcription elongation from RNA polymerase II promoter|viral reproduction	MLL1 complex|transcription factor TFIID complex	ATP binding|histone acetyl-lysine binding|histone acetyltransferase activity|p53 binding|protein binding|protein serine/threonine kinase activity|sequence-specific DNA binding|TBP-class protein binding|transcription coactivator activity			ovary(7)|breast(4)|large_intestine(2)|central_nervous_system(2)|lung(1)|skin(1)	17	Renal(35;0.156)	all_lung(315;0.000321)				GTTTTTTATGCGCACACCTCA	0.448													14	64					0	0	0.001855	0	0	
OGT	8473	broad.mit.edu	37	X	70779183	70779183	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:70779183C>T	uc004eaa.1	+	13	1886	c.1669C>T	c.(1669-1671)CGT>TGT	p.R557C	BCYRN1_uc011mpt.1_Intron|OGT_uc004eab.1_Missense_Mutation_p.R547C|OGT_uc004eac.2_Missense_Mutation_p.R418C|OGT_uc004ead.2_Missense_Mutation_p.R176C	NM_181672	NP_858058	O15294	OGT1_HUMAN	O-linked GlcNAc transferase isoform 1	557					cellular response to retinoic acid|positive regulation of granulocyte differentiation|positive regulation of histone H3-K4 methylation|positive regulation of proteolysis|protein O-linked glycosylation|signal transduction	cytosol|MLL5-L complex	enzyme activator activity|protein binding|protein N-acetylglucosaminyltransferase activity			ovary(3)|kidney(1)|pancreas(1)	5	Renal(35;0.156)					TGGTCGGCTGCGTGTAGGATA	0.398													23	27					0	0	0.002299	0	0	
ERCC6L	54821	broad.mit.edu	37	X	71425358	71425358	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:71425358T>C	uc004eaq.1	-	2	3356	c.3259A>G	c.(3259-3261)ATG>GTG	p.M1087V	PIN4_uc004eao.1_Intron|ERCC6L_uc004eap.1_Missense_Mutation_p.M964V	NM_017669	NP_060139	Q2NKX8	ERC6L_HUMAN	excision repair protein ERCC6-like	1087					cell division|mitotic prometaphase	condensed chromosome kinetochore|cytosol	ATP binding|DNA binding|helicase activity|protein binding			ovary(3)	3	Renal(35;0.156)					CTAGAGTTCATAGACTTATTT	0.413													45	27					0	0	0.003214	0	0	
CDX4	1046	broad.mit.edu	37	X	72667389	72667389	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:72667389C>T	uc011mqk.1	+	1	300	c.300C>T	c.(298-300)GAC>GAT	p.D100D		NM_005193	NP_005184	O14627	CDX4_HUMAN	caudal type homeobox 4	100						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Renal(35;0.156)					CGGTGAACGACGTGACCTCTA	0.647													5	4					0	0	0.001168	0	0	
XIST	7503	broad.mit.edu	37	X	73062792	73062792	+	RNA	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:73062792C>T	uc004ebm.1	-	1		c.9797G>A				NR_001564				Homo sapiens cDNA: FLJ21545 fis, clone COL06195.												0						AAGCATGACACCATGGCTACC	0.453													11	17					0	0	0.004007	0	0	
XIST	7503	broad.mit.edu	37	X	73066391	73066391	+	RNA	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:73066391C>T	uc004ebm.1	-	1		c.6198G>A				NR_001564				Homo sapiens cDNA: FLJ21545 fis, clone COL06195.												0						GAGCAGTGTGCGATTACGCAC	0.468													37	40					0	0	0.009718	0	0	
XIST	7503	broad.mit.edu	37	X	73068198	73068198	+	RNA	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:73068198A>G	uc004ebm.1	-	1		c.4391T>C				NR_001564				Homo sapiens cDNA: FLJ21545 fis, clone COL06195.												0						TGATGCAGGGACCTTGATATA	0.418													6	14					0	0	0.001168	0	0	
XIST	7503	broad.mit.edu	37	X	73068975	73068975	+	RNA	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:73068975C>T	uc004ebm.1	-	1		c.3614G>A				NR_001564				Homo sapiens cDNA: FLJ21545 fis, clone COL06195.												0						AATGCAAGGGCGACTGGTAGT	0.383													15	20					0	0	0.008871	0	0	
ATP7A	538	broad.mit.edu	37	X	77243895	77243895	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:77243895C>T	uc004ecx.3	+	3	438	c.278C>T	c.(277-279)ACG>ATG	p.T93M	ATP7A_uc004ecw.2_Missense_Mutation_p.T93M	NM_000052	NP_000043	Q04656	ATP7A_HUMAN	ATPase, Cu++ transporting, alpha polypeptide	93	Cytoplasmic (Potential).				ATP biosynthetic process|blood vessel development|blood vessel remodeling|cartilage development|cellular copper ion homeostasis|cerebellar Purkinje cell differentiation|collagen fibril organization|copper ion import|detoxification of copper ion|dopamine metabolic process|elastic fiber assembly|elastin biosynthetic process|epinephrine metabolic process|hair follicle morphogenesis|locomotory behavior|lung alveolus development|negative regulation of metalloenzyme activity|neuroprotection|peptidyl-lysine modification|pigmentation|positive regulation of metalloenzyme activity|positive regulation of oxidoreductase activity|pyramidal neuron development|regulation of oxidative phosphorylation|removal of superoxide radicals|serotonin metabolic process|skin development|T-helper cell differentiation|tryptophan metabolic process	basolateral plasma membrane|cytosol|endoplasmic reticulum|endoplasmic reticulum|integral to membrane|late endosome|neuron projection|neuronal cell body|perinuclear region of cytoplasm|trans-Golgi network|trans-Golgi network transport vesicle	ATP binding|copper-dependent protein binding|copper-exporting ATPase activity|superoxide dismutase copper chaperone activity				0						CTGACTGTTACGGCGTCACTG	0.443													17	207					0	0	0.004990	0	0	
HDX	139324	broad.mit.edu	37	X	83724399	83724399	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:83724399T>C	uc004eek.1	-	3	441	c.332A>G	c.(331-333)TAC>TGC	p.Y111C	HDX_uc011mqv.1_Missense_Mutation_p.Y111C|HDX_uc004eel.1_Missense_Mutation_p.Y53C	NM_144657	NP_653258	Q7Z353	HDX_HUMAN	highly divergent homeobox	111						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)|ovary(1)	2						GGCTGGACTGTATATACCAGT	0.403													23	34					0	0	0.007291	0	0	
ZNF711	7552	broad.mit.edu	37	X	84523321	84523321	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:84523321G>A	uc004eeo.2	+	7	1285	c.938G>A	c.(937-939)CGA>CAA	p.R313Q	ZNF711_uc004eep.2_Missense_Mutation_p.R313Q|ZNF711_uc004eeq.2_Missense_Mutation_p.R359Q|ZNF711_uc011mqy.1_5'UTR	NM_021998	NP_068838	Q9Y462	ZN711_HUMAN	zinc finger protein 711	313					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|zinc ion binding			ovary(3)|skin(1)	4						AGAGTTTCCCGAAGGTATGAA	0.303													14	12					0	0	0.002450	0	0	
CHM	1121	broad.mit.edu	37	X	85149202	85149202	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:85149202T>C	uc004eet.2	-	12	1531	c.1501A>G	c.(1501-1503)AAA>GAA	p.K501E	CHM_uc011mqz.1_Missense_Mutation_p.K353E	NM_000390	NP_000381	P24386	RAE1_HUMAN	choroideremia isoform a	501					intracellular protein transport|protein geranylgeranylation|response to stimulus|visual perception	Rab-protein geranylgeranyltransferase complex	GTPase activator activity|Rab geranylgeranyltransferase activity			ovary(1)	1		all_lung(315;5.41e-06)				CAGGTGCCTTTCATGCATGTC	0.398													3	53					0	0	0.004672	0	0	
NAP1L3	4675	broad.mit.edu	37	X	92927519	92927519	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:92927519T>C	uc004efq.2	-	1	1090	c.785A>G	c.(784-786)GAT>GGT	p.D262G	FAM133A_uc004efr.1_5'Flank	NM_004538	NP_004529	Q99457	NP1L3_HUMAN	nucleosome assembly protein 1-like 3	262					nucleosome assembly	chromatin assembly complex				ovary(1)|skin(1)	2						CTGTTCTTTATCATCTGCCTT	0.443													33	32					0	0	0.002836	0	0	
SYTL4	94121	broad.mit.edu	37	X	99942125	99942125	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:99942125C>T	uc004egd.3	-	13	1479	c.1123G>A	c.(1123-1125)GTC>ATC	p.V375I	SYTL4_uc010nnb.2_Missense_Mutation_p.V47I|SYTL4_uc010nnc.2_Missense_Mutation_p.V375I|SYTL4_uc004ege.3_Missense_Mutation_p.V375I|SYTL4_uc004egf.3_Missense_Mutation_p.V375I|SYTL4_uc004egg.3_3'UTR	NM_080737	NP_542775	Q96C24	SYTL4_HUMAN	synaptotagmin-like 4	375	C2 1.				exocytosis|intracellular protein transport	extrinsic to membrane|plasma membrane|synaptic vesicle|transport vesicle membrane	neurexin binding|phospholipid binding|Rab GTPase binding|transporter activity|zinc ion binding			ovary(2)	2					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	TTCACATGGACAACCAGACTC	0.512													23	34					0	0	0.004656	0	0	
NOX1	27035	broad.mit.edu	37	X	100105262	100105262	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:100105262C>T	uc004egj.2	-	9	1217	c.1011G>A	c.(1009-1011)TGG>TGA	p.W337*	NOX1_uc004egl.3_Nonsense_Mutation_p.W337*|NOX1_uc010nne.2_Nonsense_Mutation_p.W300*	NM_007052	NP_008983	Q9Y5S8	NOX1_HUMAN	NADPH oxidase 1 isoform long	337	FAD-binding FR-type.|Extracellular (Potential).				angiogenesis|cell migration|electron transport chain|FADH2 metabolic process|hydrogen peroxide metabolic process|inflammatory response|intracellular pH elevation|positive regulation of integrin biosynthetic process|positive regulation of smooth muscle cell proliferation|positive regulation vascular endothelial growth factor production|respiratory burst|response to pH|signal transduction|superoxide anion generation	cell junction|early endosome|invadopodium membrane|NADPH oxidase complex	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|Rac GTPase binding|superoxide-generating NADPH oxidase activity|voltage-gated proton channel activity			ovary(1)	1						TAAAAGGATGCCATTCCAGGA	0.458													4	29					0	0	0.009096	0	0	
TRMT2B	79979	broad.mit.edu	37	X	100297067	100297067	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:100297067C>A	uc004egq.2	-	2	511	c.212G>T	c.(211-213)AGC>ATC	p.S71I	TRMT2B_uc004egp.2_RNA|TRMT2B_uc004egr.2_Missense_Mutation_p.S71I|TRMT2B_uc004egs.2_Missense_Mutation_p.S71I|TRMT2B_uc004egt.2_Missense_Mutation_p.S71I|TRMT2B_uc004egu.2_Intron|TRMT2B_uc004egv.2_Missense_Mutation_p.S71I	NM_024917	NP_079193	Q96GJ1	TRM2_HUMAN	TRM2 tRNA methyltransferase 2 homolog B	71							tRNA (uracil-5-)-methyltransferase activity			ovary(1)	1						TCCAAGATGGCTTGGTTTCTT	0.473													8	46					0.000673444	0.000701807	0.008291	1	0	
DRP2	1821	broad.mit.edu	37	X	100505442	100505442	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:100505442G>A	uc004egz.2	+	15	1940	c.1571G>A	c.(1570-1572)AGC>AAC	p.S524N	DRP2_uc011mrh.1_Missense_Mutation_p.S446N	NM_001939	NP_001930	Q13474	DRP2_HUMAN	dystrophin related protein 2	524					central nervous system development	cytoplasm|cytoskeleton	zinc ion binding			ovary(2)	2						AACTCAGGCAGCCAGTGTGAC	0.612													4	14					0	0	0.001168	0	0	
ARMCX3	51566	broad.mit.edu	37	X	100879869	100879869	+	Translation_Start_Site	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:100879869C>T	uc004ehz.1	+	5	433	c.-100C>T	c.(-102--98)GACGA>GATGA		ARMCX3_uc004eia.1_Translation_Start_Site|ARMCX3_uc004eib.1_Translation_Start_Site|ARMCX3_uc004eic.1_Translation_Start_Site	NM_016607	NP_057691	Q9UH62	ARMX3_HUMAN	armadillo repeat containing, X-linked 3							integral to membrane	binding			ovary(1)|lung(1)	2						TGGCTGAAGACGATCACCCTC	0.542													8	2					0	0	0.008291	0	0	
NXF3	56000	broad.mit.edu	37	X	102339721	102339721	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:102339721C>T	uc004eju.2	-	2	190	c.119G>A	c.(118-120)GGC>GAC	p.G40D	NXF3_uc010noi.1_5'Flank|NXF3_uc011mrw.1_Missense_Mutation_p.G40D|NXF3_uc011mrx.1_Intron	NM_022052	NP_071335	Q9H4D5	NXF3_HUMAN	nuclear RNA export factor 3	40						cytoplasm|nuclear RNA export factor complex	nucleocytoplasmic transporter activity|nucleotide binding|protein binding			ovary(1)|lung(1)|central_nervous_system(1)	3						AGAATGCATGCCAGGATTGAC	0.433													14	122					0	0	0.003163	0	0	
NRK	203447	broad.mit.edu	37	X	105178303	105178303	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:105178303G>A	uc004emd.2	+	20	3669	c.3366G>A	c.(3364-3366)CCG>CCA	p.P1122P	NRK_uc010npc.1_Silent_p.P790P	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	1122							ATP binding|protein serine/threonine kinase activity|small GTPase regulator activity			breast(7)|ovary(3)|lung(2)|large_intestine(1)|central_nervous_system(1)	14						GTGCTGCACCGTCAGCACCTG	0.418										HNSCC(51;0.14)			37	8					0	0	0.007835	0	0	
MUM1L1	139221	broad.mit.edu	37	X	105450135	105450135	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:105450135C>T	uc004emf.1	+	4	1359	c.710C>T	c.(709-711)GCT>GTT	p.A237V	MUM1L1_uc004emg.1_Missense_Mutation_p.A237V	NM_152423	NP_689636	Q5H9M0	MUML1_HUMAN	melanoma associated antigen (mutated) 1-like 1	237										ovary(2)|pancreas(1)|skin(1)	4						GAAAAGTTTGCTCCACCTTTG	0.418													5	19					0	0	0.000602	0	0	
PSMD10	5716	broad.mit.edu	37	X	107331059	107331059	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:107331059G>A	uc004enp.1	-	4	482	c.384C>T	c.(382-384)GGC>GGT	p.G128G	PSMD10_uc004enq.1_Silent_p.G128G|PSMD10_uc010nph.1_Silent_p.G79G	NM_002814	NP_002805	O75832	PSD10_HUMAN	proteasome 26S non-ATPase subunit 10 isoform 1	128	ANK 4.|Interaction with RELA.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cytoplasmic sequestering of NF-kappaB|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of apoptosis|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of MAPKKK cascade|negative regulation of NF-kappaB transcription factor activity|negative regulation of release of cytochrome c from mitochondria|negative regulation of transcription from RNA polymerase II promoter|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of cell growth|positive regulation of cyclin-dependent protein kinase activity|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|proteasome regulatory particle assembly|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	actin cytoskeleton|cytoplasm|intermediate filament cytoskeleton|nucleus|proteasome regulatory particle	transcription factor binding			ovary(1)	1						GATTAGCCCCGCCTTCCAGTA	0.433													45	44					0	0	0.003610	0	0	
COL4A6	1288	broad.mit.edu	37	X	107422584	107422584	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:107422584C>T	uc004enw.3	-	26	2322	c.2219G>A	c.(2218-2220)AGT>AAT	p.S740N	COL4A6_uc004env.3_Missense_Mutation_p.S739N|COL4A6_uc011msn.1_Missense_Mutation_p.S739N|COL4A6_uc010npk.2_Missense_Mutation_p.S739N	NM_001847	NP_001838	Q14031	CO4A6_HUMAN	type IV alpha 6 collagen isoform A precursor	740	Triple-helical region.				cell adhesion|extracellular matrix organization	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(6)|urinary_tract(1)|large_intestine(1)	8						TAAGCCTGGACTGCCAATCAT	0.542									Alport_syndrome_with_Diffuse_Leiomyomatosis				14	15					0	0	0.002450	0	0	
GUCY2F	2986	broad.mit.edu	37	X	108691393	108691393	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:108691393G>A	uc004eod.3	-	6	1750	c.1474C>T	c.(1474-1476)CGT>TGT	p.R492C	GUCY2F_uc011msq.1_RNA	NM_001522	NP_001513	P51841	GUC2F_HUMAN	guanylate cyclase 2F precursor	492	Cytoplasmic (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			lung(4)|breast(3)|central_nervous_system(1)	8						TTTATACGACGCCTAAAACAA	0.398													16	19					0	0	0.004990	0	0	
GUCY2F	2986	broad.mit.edu	37	X	108719095	108719095	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:108719095T>C	uc004eod.3	-	2	347	c.71A>G	c.(70-72)CAC>CGC	p.H24R	GUCY2F_uc011msq.1_RNA	NM_001522	NP_001513	P51841	GUC2F_HUMAN	guanylate cyclase 2F precursor	24					intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			lung(4)|breast(3)|central_nervous_system(1)	8						AAGGCCATGGTGTCCCAGCAG	0.562											OREG0019905	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	70					0	0	0.001168	0	0	
ACSL4	2182	broad.mit.edu	37	X	108887403	108887403	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:108887403C>T	uc004eoi.2	-	17	2496	c.1991G>A	c.(1990-1992)CGA>CAA	p.R664Q	ACSL4_uc004eoj.2_Missense_Mutation_p.R623Q|ACSL4_uc004eok.2_Missense_Mutation_p.R623Q	NM_022977	NP_075266	O60488	ACSL4_HUMAN	acyl-CoA synthetase long-chain family member 4	664	Cytoplasmic (Potential).				fatty acid metabolic process|learning or memory|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane	ATP binding|long-chain fatty acid-CoA ligase activity			large_intestine(1)|lung(1)|ovary(1)	3					Icosapent(DB00159)|Troglitazone(DB00197)	AATTTCAAATCGCTCCAATTT	0.274													11	9					0	0	0.001368	0	0	
RGAG1	57529	broad.mit.edu	37	X	109695400	109695400	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:109695400G>T	uc004eor.1	+	3	1801	c.1555G>T	c.(1555-1557)GCC>TCC	p.A519S	RGAG1_uc011msr.1_Missense_Mutation_p.A519S	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	519										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						TACGGCAACAGCCTCTGAAAC	0.512													78	64					3.99893e-49	4.39638e-49	0.003610	1	0	
RGAG1	57529	broad.mit.edu	37	X	109696693	109696693	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:109696693T>C	uc004eor.1	+	3	3094	c.2848T>C	c.(2848-2850)TCC>CCC	p.S950P	RGAG1_uc011msr.1_Missense_Mutation_p.S950P	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	950										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						TGGAGGGATGTCCAAGCCATT	0.512													7	77					0	0	0.001855	0	0	
ZCCHC16	340595	broad.mit.edu	37	X	111698834	111698834	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:111698834G>A	uc004epo.1	+	3	1319	c.878G>A	c.(877-879)TGC>TAC	p.C293Y		NM_001004308	NP_001004308	Q6ZR62	ZCH16_HUMAN	zinc finger, CCHC domain containing 16	293	CCHC-type.						nucleic acid binding|zinc ion binding			ovary(1)	1						ACAAGAGATTGCCTTGCCAAA	0.517													6	35					0	0	0.001984	0	0	
LUZP4	51213	broad.mit.edu	37	X	114536676	114536676	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:114536676C>T	uc004eqa.2	+	2	245	c.211C>T	c.(211-213)CGC>TGC	p.R71C	LUZP4_uc004eqb.2_Silent_p.I28I	NM_016383	NP_057467	Q9P127	LUZP4_HUMAN	leucine zipper protein 4	71						nucleus				ovary(2)	2						TCATAGACATCGCCATCGGAG	0.348													104	94					0	0	0.003610	0	0	
LUZP4	51213	broad.mit.edu	37	X	114537928	114537928	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:114537928C>T	uc004eqa.2	+	3	321	c.287C>T	c.(286-288)CCT>CTT	p.P96L	LUZP4_uc004eqb.2_Intron	NM_016383	NP_057467	Q9P127	LUZP4_HUMAN	leucine zipper protein 4	96						nucleus				ovary(2)	2						TCCCAAAAACCTTCTGGATTC	0.338													4	97					0	0	0.001168	0	0	
LUZP4	51213	broad.mit.edu	37	X	114540908	114540908	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:114540908C>T	uc004eqa.2	+	4	515	c.481C>T	c.(481-483)CGA>TGA	p.R161*	LUZP4_uc004eqb.2_Nonsense_Mutation_p.R79*	NM_016383	NP_057467	Q9P127	LUZP4_HUMAN	leucine zipper protein 4	161						nucleus				ovary(2)	2						TCATTCTGAGCGATCCCGAAA	0.463													53	55					0	0	0.003610	0	0	
PLS3	5358	broad.mit.edu	37	X	114877715	114877715	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:114877715A>G	uc004eqd.2	+	10	1468	c.1078A>G	c.(1078-1080)AGT>GGT	p.S360G	PLS3_uc010nqg.2_Missense_Mutation_p.S142G|PLS3_uc011mtf.1_Missense_Mutation_p.S347G|PLS3_uc004eqe.2_Missense_Mutation_p.S360G|PLS3_uc011mtg.1_Missense_Mutation_p.S333G|PLS3_uc011mth.1_Missense_Mutation_p.S315G|PLS3_uc011mti.1_Missense_Mutation_p.S36G|PLS3_uc011mtj.1_Intron|PLS3_uc011mtk.1_Missense_Mutation_p.S21G|PLS3_uc011mtl.1_RNA	NM_005032	NP_005023	P13797	PLST_HUMAN	plastin 3	360	CH 2.|Actin-binding 1.					cytoplasm	actin binding|calcium ion binding			lung(1)|breast(1)	2						TGATGTTGTCAGTGGAAACCC	0.413													36	31					0	0	0.005524	0	0	
AGTR2	186	broad.mit.edu	37	X	115303556	115303556	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:115303556C>T	uc004eqh.3	+	3	230	c.23C>T	c.(22-24)GCC>GTC	p.A8V		NM_000686	NP_000677	P50052	AGTR2_HUMAN	angiotensin II receptor, type 2	8	Extracellular (Potential).				behavior|blood vessel remodeling|brain development|G-protein signaling, coupled to cGMP nucleotide second messenger|intracellular protein kinase cascade|negative regulation of blood vessel endothelial cell migration|negative regulation of cell growth|negative regulation of heart rate|negative regulation of nerve growth factor receptor signaling pathway|nitric oxide mediated signal transduction|positive regulation of apoptosis|positive regulation of nitric-oxide synthase activity|positive regulation of phosphoprotein phosphatase activity|positive regulation of vasodilation|regulation of systemic arterial blood pressure by circulatory renin-angiotensin		angiotensin type II receptor activity|receptor antagonist activity			ovary(2)|lung(1)	3						TCCACCCTTGCCACTACTAGC	0.433													10	40					0	0	0.008291	0	0	
DOCK11	139818	broad.mit.edu	37	X	117722426	117722426	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:117722426C>T	uc004eqp.2	+	18	2094	c.2031C>T	c.(2029-2031)GAC>GAT	p.D677D	DOCK11_uc004eqq.2_Silent_p.D443D	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11	677	DHR-1.				blood coagulation	cytosol	GTP binding			ovary(3)	3						ATGAAAGTGACGCTAGTGCCC	0.353													48	34					0	0	0.003610	0	0	
DOCK11	139818	broad.mit.edu	37	X	117773400	117773400	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:117773400T>C	uc004eqp.2	+	38	4067	c.4004T>C	c.(4003-4005)GTG>GCG	p.V1335A	DOCK11_uc004eqq.2_Missense_Mutation_p.V1114A	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11	1335					blood coagulation	cytosol	GTP binding			ovary(3)	3						TATTTTAGGGTGCATGATGCC	0.388													8	41					0	0	0.006214	0	0	
NKRF	55922	broad.mit.edu	37	X	118723342	118723342	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:118723342G>A	uc004erq.2	-	2	2699	c.2046C>T	c.(2044-2046)TAC>TAT	p.Y682Y	NKRF_uc004err.2_Silent_p.Y682Y	NM_017544	NP_060014	O15226	NKRF_HUMAN	transcription factor NRF	682					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|double-stranded RNA binding			ovary(1)|central_nervous_system(1)	2						TAACAAGCTCGTAATGGCCCA	0.418													7	43					0	0	0.001984	0	0	
FAM70A	55026	broad.mit.edu	37	X	119419030	119419030	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:119419030C>T	uc004eso.3	-	7	763	c.536G>A	c.(535-537)CGC>CAC	p.R179H	FAM70A_uc004esp.3_Missense_Mutation_p.R155H|FAM70A_uc010nqo.2_Intron	NM_017938	NP_060408	Q5JRV8	FA70A_HUMAN	hypothetical protein LOC55026 isoform 1	179						integral to membrane				lung(1)|breast(1)	2						GCCCCGGATGCGAGGTGTGCA	0.532													27	76					0	0	0.005443	0	0	
ATP1B4	23439	broad.mit.edu	37	X	119504981	119504981	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:119504981G>A	uc004esr.2	+	4	562	c.478G>A	c.(478-480)GCC>ACC	p.A160T	ATP1B4_uc004esq.2_Missense_Mutation_p.A156T|ATP1B4_uc011mtx.1_Missense_Mutation_p.A125T|ATP1B4_uc011mty.1_Missense_Mutation_p.A117T	NM_001142447	NP_001135919	Q9UN42	AT1B4_HUMAN	ATPase, (Na+)/K+ transporting, beta 4	160	Perinuclear space (Potential).				ATP biosynthetic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to plasma membrane|nuclear inner membrane	sodium:potassium-exchanging ATPase activity			ovary(1)|skin(1)	2						CAGACCCTTCGCCCATAGCCT	0.403													10	59					0	0	0.008291	0	0	
C1GALT1C1	29071	broad.mit.edu	37	X	119760637	119760637	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:119760637C>T	uc004esy.2	-	3	732	c.385G>A	c.(385-387)GCC>ACC	p.A129T	C1GALT1C1_uc004esz.2_Missense_Mutation_p.A129T	NM_152692	NP_689905	Q96EU7	C1GLC_HUMAN	C1GALT1-specific chaperone 1	129	Lumenal (Potential).					integral to membrane					0						TTATCAAAGGCGTATTTGTAA	0.343													7	58					0	0	0.003080	0	0	
GRIA3	2892	broad.mit.edu	37	X	122537363	122537363	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:122537363C>T	uc004etq.3	+	10	1579	c.1286C>T	c.(1285-1287)ACC>ATC	p.T429I	GRIA3_uc004etr.3_Missense_Mutation_p.T429I|GRIA3_uc004ets.3_RNA|GRIA3_uc011muf.1_Missense_Mutation_p.T413I	NM_007325	NP_015564	P42263	GRIA3_HUMAN	glutamate receptor, ionotrophic, AMPA 3 isoform	429	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5					L-Glutamic Acid(DB00142)	GTAGTGACTACCATTCTGGTA	0.438													8	113					0	0	0.003080	0	0	
THOC2	57187	broad.mit.edu	37	X	122757719	122757719	+	Missense_Mutation	SNP	C	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:122757719C>G	uc004etu.2	-	28	3454	c.3422G>C	c.(3421-3423)GGT>GCT	p.G1141A	THOC2_uc010nqt.1_5'Flank|THOC2_uc004etw.1_5'Flank	NM_001081550	NP_001075019	Q8NI27	THOC2_HUMAN	THO complex 2	1141					intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	THO complex part of transcription export complex	protein binding|RNA binding			ovary(3)	3						CAAAGCTTGACCCAGATTCAA	0.368													3	72					0	0	0.009096	0	0	
STAG2	10735	broad.mit.edu	37	X	123185030	123185030	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:123185030G>A	uc004etz.3	+	11	1416	c.1077G>A	c.(1075-1077)GAG>GAA	p.E359E	STAG2_uc004eua.2_Silent_p.E359E|STAG2_uc004eub.2_Silent_p.E359E|STAG2_uc004euc.2_Silent_p.E359E|STAG2_uc004eud.2_Silent_p.E359E|STAG2_uc004eue.2_Silent_p.E359E	NM_006603	NP_006594	Q8N3U4	STAG2_HUMAN	stromal antigen 2 isoform b	359	SCD.				cell division|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|negative regulation of DNA endoreduplication|sister chromatid cohesion	chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(4)|skin(1)	5						ATAACAAAGAGCTTAATTCCA	0.299													16	16					0	0	0.010504	0	0	
STAG2	10735	broad.mit.edu	37	X	123229279	123229279	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:123229279G>A	uc004etz.3	+	32	3991	c.3652G>A	c.(3652-3654)GCT>ACT	p.A1218T	STAG2_uc004eua.2_Missense_Mutation_p.A1255T|STAG2_uc004eub.2_Missense_Mutation_p.A1218T|STAG2_uc004euc.2_Missense_Mutation_p.A1255T|STAG2_uc004eud.2_Missense_Mutation_p.A1218T|STAG2_uc004eue.2_Missense_Mutation_p.A1218T	NM_006603	NP_006594	Q8N3U4	STAG2_HUMAN	stromal antigen 2 isoform b	1218					cell division|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|negative regulation of DNA endoreduplication|sister chromatid cohesion	chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(4)|skin(1)	5						CTTTGATCCAGCTTCAATTAT	0.373													25	31					0	0	0.005443	0	0	
ODZ1	10178	broad.mit.edu	37	X	123514894	123514894	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:123514894G>A	uc004euj.2	-	31	7734	c.7670C>T	c.(7669-7671)GCC>GTC	p.A2557V	ODZ1_uc011muj.1_Missense_Mutation_p.A2563V|ODZ1_uc010nqy.2_Missense_Mutation_p.A2564V	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	2557	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						CAGGTAATGGGCATTATTGAG	0.443													5	44					0	0	0.001168	0	0	
ODZ1	10178	broad.mit.edu	37	X	123517988	123517988	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:123517988C>T	uc004euj.2	-	29	6836	c.6772G>A	c.(6772-6774)GCG>ACG	p.A2258T	ODZ1_uc011muj.1_Missense_Mutation_p.A2264T|ODZ1_uc010nqy.2_Missense_Mutation_p.A2265T	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	2258	YD 21.|Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding	p.A2260T(1)		ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						GACTTACTCGCGACACGTCGC	0.458													33	45					0	0	0.004878	0	0	
ODZ1	10178	broad.mit.edu	37	X	123539084	123539084	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:123539084C>T	uc004euj.2	-	26	5231	c.5167G>A	c.(5167-5169)GAT>AAT	p.D1723N	ODZ1_uc011muj.1_Missense_Mutation_p.D1729N|ODZ1_uc010nqy.2_Missense_Mutation_p.D1730N	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	1723	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						AGGGAACCATCTGGATTCACC	0.542													7	27					0	0	0.003080	0	0	
ODZ1	10178	broad.mit.edu	37	X	123556366	123556366	+	Silent	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:123556366G>T	uc004euj.2	-	23	4270	c.4206C>A	c.(4204-4206)CGC>CGA	p.R1402R	ODZ1_uc011muj.1_Silent_p.R1408R|ODZ1_uc010nqy.2_Silent_p.R1409R	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	1402	NHL 3.|Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						AGTGAATGGGGCGTCCTGCGA	0.493													31	26					3.1745e-13	3.44503e-13	0.008361	1	0	
DCAF12L2	340578	broad.mit.edu	37	X	125299778	125299778	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:125299778G>A	uc004euk.1	-	1	157	c.130C>T	c.(130-132)CGG>TGG	p.R44W		NM_001013628	NP_001013650	Q5VW00	DC122_HUMAN	DDB1 and CUL4 associated factor 12-like 2	44										lung(2)|skin(2)|large_intestine(1)|pancreas(1)|ovary(1)	7						GTCGCCGGCCGCTTCTGCTTC	0.731													3	5					0	0	0.009096	0	0	
DCAF12L1	139170	broad.mit.edu	37	X	125686328	125686328	+	Silent	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:125686328C>A	uc004eul.2	-	1	515	c.264G>T	c.(262-264)ACG>ACT	p.T88T		NM_178470	NP_848565	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	88										skin(3)|ovary(1)	4						GTTGGCGCTCCGTCAGCAGCT	0.657													11	4					9.31168e-06	9.82941e-06	0.001855	1	0	
OCRL	4952	broad.mit.edu	37	X	128696607	128696607	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:128696607T>C	uc004euq.2	+	12	1253	c.1088T>C	c.(1087-1089)GTA>GCA	p.V363A	OCRL_uc004eur.2_Missense_Mutation_p.V363A	NM_000276	NP_000267	Q01968	OCRL_HUMAN	phosphatidylinositol polyphosphate 5-phosphatase	363					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	clathrin-coated vesicle|cytosol|early endosome|Golgi stack|Golgi-associated vesicle	GTPase activator activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			lung(2)|ovary(1)|kidney(1)	4						GTGAGATTTGTATTTCACAAC	0.393													8	81					0	0	0.004482	0	0	
OCRL	4952	broad.mit.edu	37	X	128718327	128718327	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:128718327G>A	uc004euq.2	+	19	2287	c.2122G>A	c.(2122-2124)GAC>AAC	p.D708N	OCRL_uc004eur.2_Intron	NM_000276	NP_000267	Q01968	OCRL_HUMAN	phosphatidylinositol polyphosphate 5-phosphatase	708					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	clathrin-coated vesicle|cytosol|early endosome|Golgi stack|Golgi-associated vesicle	GTPase activator activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			lung(2)|ovary(1)|kidney(1)	4						TCAGGAAGAAGACAGCTTCCT	0.393													6	58					0	0	0.001168	0	0	
RBMX2	51634	broad.mit.edu	37	X	129546424	129546424	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:129546424C>T	uc004evt.2	+	6	635	c.571C>T	c.(571-573)CGC>TGC	p.R191C		NM_016024	NP_057108	Q9Y388	RBMX2_HUMAN	RNA binding motif protein, X-linked 2	191	Lys-rich.						nucleotide binding|RNA binding			breast(3)|ovary(1)	4						GTCACCCAGACGCAAGACAGT	0.448													19	40					0	0	0.002299	0	0	
RBMX2	51634	broad.mit.edu	37	X	129546773	129546773	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:129546773G>A	uc004evt.2	+	6	984	c.920G>A	c.(919-921)CGC>CAC	p.R307H		NM_016024	NP_057108	Q9Y388	RBMX2_HUMAN	RNA binding motif protein, X-linked 2	307	Arg-rich.			SSDAHSSWYNGRSEGRSYRSRSRSRDKSHRHKRARRSRERE SSNPSDRWRH -> LQMHILAGIMGVLKGVVIEVEVGAEIN PIGIKGPDAPGRGVLRIPVTVGVTEDFSCTVDLEIIMFFKC SQIQLGGYYFCI (in Ref. 1; AAD34074).			nucleotide binding|RNA binding			breast(3)|ovary(1)	4						AGGGCCCGACGCTCCCGGGAG	0.473													13	14					0	0	0.010504	0	0	
IGSF1	3547	broad.mit.edu	37	X	130415705	130415705	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:130415705C>T	uc004ewd.2	-	8	1698	c.1460G>A	c.(1459-1461)CGC>CAC	p.R487H	IGSF1_uc004ewe.3_Missense_Mutation_p.R476H|IGSF1_uc004ewf.2_Missense_Mutation_p.R467H	NM_001555	NP_001546	Q8N6C5	IGSF1_HUMAN	immunoglobulin superfamily, member 1 isoform 1	487	Extracellular (Potential).|Ig-like C2-type 5.				regulation of transcription, DNA-dependent	extracellular region|integral to membrane	inhibin beta-A binding|inhibin beta-B binding			ovary(3)|lung(1)|central_nervous_system(1)	5						TGTCTCTACGCGATAGCTGCA	0.493													5	48					0	0	0.001984	0	0	
ZNF75D	7626	broad.mit.edu	37	X	134421741	134421741	+	Silent	SNP	A	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:134421741A>C	uc004eyp.2	-	7	3516	c.861T>G	c.(859-861)CCT>CCG	p.P287P	ZNF75D_uc004eym.2_Intron|ZNF75D_uc004eyn.2_Silent_p.P66P|ZNF75D_uc004eyo.2_Silent_p.P192P	NM_007131	NP_009062	P51815	ZN75D_HUMAN	zinc finger protein 75	287	KRAB.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						AAACAGATATAGGATGATCAT	0.363													11	34					0	0	0.001368	0	0	
HTATSF1	27336	broad.mit.edu	37	X	135593613	135593613	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:135593613T>C	uc004ezw.2	+	10	2131	c.1709T>C	c.(1708-1710)CTC>CCC	p.L570P	HTATSF1_uc004ezx.2_Missense_Mutation_p.L570P	NM_001163280	NP_001156752	O43719	HTSF1_HUMAN	HIV-1 Tat specific factor 1	570	Asp/Glu-rich (acidic).|Mediates interaction with the P-TEFb complex.				regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|viral genome replication	nucleus	nucleotide binding|protein binding|RNA binding			ovary(2)|breast(1)	3	Acute lymphoblastic leukemia(192;0.000127)					GAAAATGGTCTCGAGAAAGAT	0.388													10	82					0	0	0.008291	0	0	
F9	2158	broad.mit.edu	37	X	138644001	138644001	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:138644001C>T	uc004fas.1	+	8	1186	c.1157C>T	c.(1156-1158)ACA>ATA	p.T386I	F9_uc004fat.1_Missense_Mutation_p.T348I	NM_000133	NP_000124	P00740	FA9_HUMAN	coagulation factor IX preproprotein	386	Peptidase S1.				blood coagulation, extrinsic pathway|blood coagulation, intrinsic pathway|peptidyl-glutamic acid carboxylation|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen|plasma membrane	calcium ion binding|serine-type endopeptidase activity			lung(2)|ovary(1)	3	Acute lymphoblastic leukemia(192;0.000127)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Heparin(DB01109)|Menadione(DB00170)	CTTCGATCTACAAAGTTCACC	0.463													12	62					0	0	0.001855	0	0	
ATP11C	286410	broad.mit.edu	37	X	138844225	138844225	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:138844225G>A	uc004faz.2	-	22	2643	c.2544C>T	c.(2542-2544)AGC>AGT	p.S848S	ATP11C_uc004fax.2_Silent_p.S56S|ATP11C_uc004fay.2_RNA|ATP11C_uc004fba.2_Silent_p.S848S	NM_173694	NP_775965	Q8NB49	AT11C_HUMAN	ATPase, class VI, type 11C isoform a	848	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(5)|large_intestine(3)	8	Acute lymphoblastic leukemia(192;0.000127)					CAGAATAATCGCTATTCCTAG	0.363													51	70					0	0	0.003610	0	0	
MIR891A	100126341	broad.mit.edu	37	X	145109366	145109366	+	RNA	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:145109366C>T	hsa-mir-891a|MI0005524	-			c.25C>T																				0						GAATCAGTGGCTCAGGTTCGT	0.328													13	29					0	0	0.002450	0	0	
IDS	3423	broad.mit.edu	37	X	148564576	148564576	+	Missense_Mutation	SNP	A	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:148564576A>G	uc011mxe.1	-	9	1552	c.1354T>C	c.(1354-1356)TAC>CAC	p.Y452H	IDS_uc011mxd.1_Missense_Mutation_p.Y55H|IDS_uc011mxf.1_Missense_Mutation_p.Y362H|IDS_uc011mxg.1_Missense_Mutation_p.Y241H|IDS_uc010nsu.1_Missense_Mutation_p.Y62H|IDS_uc004fcw.3_Missense_Mutation_p.Y241H	NM_000202	NP_000193	P22304	IDS_HUMAN	iduronate-2-sulfatase isoform a precursor	452						lysosome	iduronate-2-sulfatase activity|metal ion binding				0	Acute lymphoblastic leukemia(192;6.56e-05)|Colorectal(9;0.0662)					CCAGGGAGGTACGGATCCTCT	0.502													4	54					0	0	0.000602	0	0	
MAGEA8	4107	broad.mit.edu	37	X	149013852	149013852	+	Missense_Mutation	SNP	C	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:149013852C>A	uc004fdw.1	+	3	1021	c.806C>A	c.(805-807)CCT>CAT	p.P269H		NM_005364	NP_005355	P43361	MAGA8_HUMAN	melanoma antigen family A, 8	269	MAGE.										0	Acute lymphoblastic leukemia(192;6.56e-05)					GGCAGTGATCCTGTGCGCTAC	0.577													59	57					5.73332e-34	6.30182e-34	0.003610	1	0	
MTMR1	8776	broad.mit.edu	37	X	149901140	149901140	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:149901140G>A	uc004fei.2	+	9	1129	c.994G>A	c.(994-996)GCA>ACA	p.A332T	MTMR1_uc011mya.1_Missense_Mutation_p.A238T|MTMR1_uc004feg.1_Missense_Mutation_p.A332T|MTMR1_uc004feh.1_Missense_Mutation_p.A340T|MTMR1_uc004fej.2_RNA|MTMR1_uc010ntf.2_RNA	NM_003828	NP_003819	Q13613	MTMR1_HUMAN	myotubularin-related protein 1	332	Myotubularin phosphatase.					plasma membrane	protein tyrosine phosphatase activity			ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					GGATGCTAACGCACAGTCACA	0.423													17	20					0	0	0.007413	0	0	
GABRE	2564	broad.mit.edu	37	X	151123859	151123859	+	Missense_Mutation	SNP	G	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:151123859G>T	uc004ffi.2	-	8	1172	c.1118C>A	c.(1117-1119)GCT>GAT	p.A373D	GABRE_uc011myd.1_RNA	NM_004961	NP_004952	P78334	GBRE_HUMAN	gamma-aminobutyric acid (GABA) A receptor,	373	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)					TTTAGGAGAAGCATGGGCTTT	0.498													18	58					2.5808e-16	2.8136e-16	0.006122	1	0	
GABRA3	2556	broad.mit.edu	37	X	151358341	151358341	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:151358341G>A	uc010ntk.1	-	9	1244	c.1004C>T	c.(1003-1005)GCG>GTG	p.A335V		NM_000808	NP_000799	P34903	GBRA3_HUMAN	gamma-aminobutyric acid A receptor, alpha 3	335					gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)				Alprazolam(DB00404)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	CATGGCCGTCGCATATGCCAC	0.468													14	35					0	0	0.001855	0	0	
GABRQ	55879	broad.mit.edu	37	X	151821085	151821085	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:151821085C>T	uc004ffp.1	+	9	1260	c.1240C>T	c.(1240-1242)CTC>TTC	p.L414F		NM_018558	NP_061028	Q9UN88	GBRT_HUMAN	gamma-aminobutyric acid (GABA) receptor, theta	414						cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|neurotransmitter transporter activity			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CCCGGAAAGCCTCGGTTCTTT	0.627													10	21					0	0	0.008291	0	0	
CETN2	1069	broad.mit.edu	37	X	151998218	151998218	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:151998218C>T	uc004fgq.2	-	2	137	c.90G>A	c.(88-90)AAG>AAA	p.K30K	CETN2_uc004fgr.2_5'UTR|NSDHL_uc004fgt.1_5'Flank|NSDHL_uc004fgs.1_5'Flank	NM_004344	NP_004335	P41208	CETN2_HUMAN	caltractin	30	EF-hand 1.				cell division|centriole replication|G2/M transition of mitotic cell cycle|mitosis|nucleotide-excision repair|regulation of cytokinesis	centriole|cytosol|XPC complex	ATP binding|ATP-dependent helicase activity|calcium ion binding|nucleic acid binding				0	Acute lymphoblastic leukemia(192;6.56e-05)					GGATCTCCTGCTTTTGCTCTT	0.453								Direct_reversal_of_damage|NER					9	48					0	0	0.008291	0	0	
NSDHL	50814	broad.mit.edu	37	X	152034374	152034374	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:152034374C>T	uc004fgt.1	+	7	816	c.555C>T	c.(553-555)GGC>GGT	p.G185G	NSDHL_uc004fgs.1_Silent_p.G185G	NM_001129765	NP_001123237	Q15738	NSDHL_HUMAN	NAD(P) dependent steroid dehydrogenase-like	185					cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|C-3 sterol dehydrogenase (C-4 sterol decarboxylase) activity|sterol-4-alpha-carboxylate 3-dehydrogenase (decarboxylating) activity				0	Acute lymphoblastic leukemia(192;6.56e-05)				NADH(DB00157)	CAGTTCTGGGCGCCAACGATC	0.582													9	54					0	0	0.008291	0	0	
IDH3G	3421	broad.mit.edu	37	X	153053556	153053556	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:153053556C>T	uc004fip.2	-	6	567	c.381G>A	c.(379-381)TCG>TCA	p.S127S	IDH3G_uc004fio.2_Silent_p.S69S|IDH3G_uc004fiq.2_Silent_p.S127S|IDH3G_uc010num.2_Silent_p.S69S|IDH3G_uc004fir.2_Silent_p.S69S|IDH3G_uc004fit.1_Silent_p.S127S|IDH3G_uc004fis.2_Silent_p.S69S|IDH3G_uc004fiu.2_5'Flank	NM_004135	NP_004126	P51553	IDH3G_HUMAN	isocitrate dehydrogenase 3 (NAD+) gamma isoform	127					carbohydrate metabolic process|isocitrate metabolic process|tricarboxylic acid cycle	mitochondrial matrix|nucleolus	ATP binding|isocitrate dehydrogenase (NAD+) activity|magnesium ion binding|NAD binding				0	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)				NADH(DB00157)	GAGATTTGTGCGACGGTGGCA	0.592													51	63					0	0	0.003610	0	0	
IRAK1	3654	broad.mit.edu	37	X	153282484	153282484	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:153282484C>T	uc004fjs.1	-	8	1023	c.944G>A	c.(943-945)CGA>CAA	p.R315Q	IRAK1_uc004fjr.1_Missense_Mutation_p.R315Q|IRAK1_uc004fjt.1_Missense_Mutation_p.R315Q|IRAK1_uc010nur.2_Intron|IRAK1_uc004fju.2_Missense_Mutation_p.R341Q	NM_001569	NP_001560	P51617	IRAK1_HUMAN	interleukin-1 receptor-associated kinase 1	315	Protein kinase.				activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|anti-apoptosis|innate immune response|interleukin-1-mediated signaling pathway|JNK cascade|lipopolysaccharide-mediated signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of NF-kappaB transcription factor activity|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|protein autophosphorylation|protein oligomerization|regulation of cytokine-mediated signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transmembrane receptor protein serine/threonine kinase signaling pathway	cytosol|endosome membrane|interleukin-1 receptor complex	ATP binding|NF-kappaB-inducing kinase activity|protein binding|protein heterodimerization activity|protein homodimerization activity|ubiquitin-protein ligase activity			lung(5)|ovary(2)|breast(1)|central_nervous_system(1)	9	all_cancers(53;3.7e-16)|all_epithelial(53;3.44e-10)|all_lung(58;2.06e-07)|Lung NSC(58;2.72e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GATGTCCAGTCGCTGAGGCCA	0.542													20	19					0	0	0.002299	0	0	
PLXNA3	55558	broad.mit.edu	37	X	153689070	153689070	+	Missense_Mutation	SNP	T	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:153689070T>G	uc004flm.2	+	2	720	c.547T>G	c.(547-549)TCC>GCC	p.S183A		NM_017514	NP_059984	P51805	PLXA3_HUMAN	plexin A3 precursor	183	Sema.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	transmembrane receptor activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CACCTTGAGCTCCCGCAAGCT	0.602													5	58					0	0	0.001168	0	0	
PLXNA3	55558	broad.mit.edu	37	X	153697254	153697254	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:153697254C>T	uc004flm.2	+	25	4549	c.4376C>T	c.(4375-4377)GCA>GTA	p.A1459V		NM_017514	NP_059984	P51805	PLXA3_HUMAN	plexin A3 precursor	1459	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	transmembrane receptor activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					ACGGGCGAGGCACGATACTCC	0.617													17	29					0	0	0.007413	0	0	
H2AFB1	474382	broad.mit.edu	37	X	154113536	154113536	+	Missense_Mutation	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:154113536C>T	uc004fmu.2	+	1	220	c.212C>T	c.(211-213)GCG>GTG	p.A71V	F8_uc004fmt.2_Intron|F8_uc004fms.2_Intron|F8A1_uc004fmv.2_5'Flank	NM_080720	NP_542451	P0C5Y9	H2AB1_HUMAN	H2A histone family, member B3	71					nucleosome assembly	nucleosome|nucleus	DNA binding				0	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					CCGGAGCTGGCGGGCAACGAG	0.627													20	24					0	0	0.007291	0	0	
F8	2157	broad.mit.edu	37	X	154159120	154159120	+	Missense_Mutation	SNP	T	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:154159120T>C	uc004fmt.2	-	14	3116	c.2945A>G	c.(2944-2946)AAT>AGT	p.N982S		NM_000132	NP_000123	P00451	FA8_HUMAN	coagulation factor VIII isoform a precursor	982	B.				acute-phase response|blood coagulation, intrinsic pathway|cell adhesion|platelet activation|platelet degranulation	extracellular space|plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity|protein binding			ovary(5)|large_intestine(2)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	11	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)	TGACGATACATTTTTTCCCCA	0.373													5	66					0	0	0.001168	0	0	
TMLHE	55217	broad.mit.edu	37	X	154754277	154754277	+	Missense_Mutation	SNP	A	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:154754277A>T	uc004fnn.2	-	3	364	c.198T>A	c.(196-198)AAT>AAA	p.N66K	TMLHE_uc004fno.2_Missense_Mutation_p.N66K|TMLHE_uc004fnp.3_Missense_Mutation_p.N66K	NM_018196	NP_060666	Q9NVH6	TMLH_HUMAN	trimethyllysine hydroxylase, epsilon	66				N -> D (in Ref. 3; CAG33546).	carnitine biosynthetic process	mitochondrial matrix	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|trimethyllysine dioxygenase activity			ovary(1)	1	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Succinic acid(DB00139)|Vitamin C(DB00126)	GCATCACGGTATTAGCATATT	0.428													14	65					0	0	0.006122	0	0	
SPRY3	10251	broad.mit.edu	37	X	155003998	155003998	+	Silent	SNP	C	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:155003998C>T	uc004fnq.1	+	2	919	c.465C>T	c.(463-465)TGC>TGT	p.C155C	SPRY3_uc010nvl.1_Intron	NM_005840	NP_005831	O43610	SPY3_HUMAN	sprouty homolog 3	155	SPR.|Cys-rich.				multicellular organismal development|regulation of signal transduction	cytoplasm|membrane					0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					GCTGCAAGTGCGTCCCCTGCA	0.592													8	54					0	0	0.000978	0	0	
VAMP7	6845	broad.mit.edu	37	X	155169438	155169438	+	Missense_Mutation	SNP	T	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:155169438T>A	uc004fnr.2	+	7	749	c.575T>A	c.(574-576)ATC>AAC	p.I192N	VAMP7_uc004fnt.2_Missense_Mutation_p.I151N|VAMP7_uc011naa.1_Missense_Mutation_p.I153N|VAMP7_uc011nab.1_Missense_Mutation_p.I91N|VAMP7_uc004fns.2_Nonsense_Mutation_p.Y169*|VAMP7_uc011nac.1_Missense_Mutation_p.I125N	NM_005638	NP_005629	P51809	VAMP7_HUMAN	vesicle-associated membrane protein 7 isoform 1	192	Helical; Anchor for type IV membrane protein; (Potential).				calcium ion-dependent exocytosis|endosome to lysosome transport|eosinophil degranulation|ER to Golgi vesicle-mediated transport|neutrophil degranulation|phagocytosis, engulfment|post-Golgi vesicle-mediated transport|protein transport|vesicle fusion	endoplasmic reticulum membrane|Golgi apparatus|integral to membrane|late endosome membrane|lysosomal membrane|phagocytic vesicle membrane|plasma membrane|SNARE complex|transport vesicle membrane	protein binding				0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					CTCACTATTATCATCATCATC	0.338													5	159					0	0	0.001168	0	0	
ZFY	7544	broad.mit.edu	37	Y	2847736	2847736	+	Missense_Mutation	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrY:2847736G>A	uc004fqj.2	+	8	2429	c.2108G>A	c.(2107-2109)CGC>CAC	p.R703H	ZFY_uc011nan.1_Missense_Mutation_p.R512H|ZFY_uc010nwe.2_Missense_Mutation_p.R626H	NM_003411	NP_003402	P08048	ZFY_HUMAN	zinc finger protein, Y-linked isoform 1	703	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GTTCTAAGTCGCCATATTCTC	0.373													30	39					0	0	0.003755	0	0	
NLGN4Y	22829	broad.mit.edu	37	Y	16952743	16952743	+	Silent	SNP	G	A	A			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrY:16952743G>A	uc004ftg.2	+	6	2304	c.2052G>A	c.(2050-2052)TCG>TCA	p.S684S	NLGN4Y_uc004fte.2_Silent_p.S516S|NLGN4Y_uc011nas.1_Silent_p.S704S|NLGN4Y_uc004ftf.2_Silent_p.S377S|NLGN4Y_uc004fth.2_Silent_p.S684S	NM_014893	NP_055708	Q8NFZ3	NLGNY_HUMAN	neuroligin 4, Y-linked isoform 1	684	Helical; (Potential).				brainstem development|cell adhesion|cerebellum development|male courtship behavior|positive regulation of organ growth|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|integral to plasma membrane|synapse	neurexin binding|receptor activity				0						TCGGGGCGTCGCTCCTCTTCC	0.532													9	14					0	0	0.000978	0	0	
Unknown	0	broad.mit.edu	37	1	168049409	168049409	+	RNA	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr1:168049409delT	uc001gfa.1	-	1		c.521delA								Homo sapiens cDNA FLJ33952 fis, clone CTONG2018614.																		GGGCCTTCAGTTTTTTTTAGG	0.378													3	3	---	---	---	---						.
CCDC3	83643	broad.mit.edu	37	10	12940430	12940431	+	Frame_Shift_Ins	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:12940430_12940431insG	uc001ilq.1	-	3	932_933	c.798_799insC	c.(796-801)CCCTACfs	p.P266fs	CCDC3_uc009xjb.1_RNA|CCDC3_uc001ilr.2_RNA|CCDC3_uc009xjc.1_RNA	NM_031455	NP_113643	Q9BQI4	CCDC3_HUMAN	coiled-coil domain containing 3 precursor	266_267						endoplasmic reticulum|extracellular region				ovary(1)	1		Ovarian(717;0.0822)	BRCA - Breast invasive adenocarcinoma(52;0.163)			CCCCGCAGGTAGGGGGGGCGCA	0.644													6	11	---	---	---	---						.
Unknown	0	broad.mit.edu	37	10	31001488	31001488	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr10:31001488delA	uc010qdx.1	+	9	1472	c.930delA	c.(928-930)GGAfs	p.G310fs						SubName: Full=cDNA FLJ59642, highly similar to Supervillin;																		TAACTACAGGAAAAAAATCTC	0.448													22	44	---	---	---	---						.
MUC5B	727897	broad.mit.edu	37	11	1262591	1262591	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:1262591delC	uc009ycr.1	+	47	6686	c.6560delC	c.(6559-6561)ACCfs	p.T2187fs	MUC5B_uc001ltb.2_Frame_Shift_Del_p.T1497fs	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	1494	7 X Cys-rich subdomain repeats.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		GTGACGGTCACCCCCTCGGCC	0.637													4	8	---	---	---	---						.
CCDC73	493860	broad.mit.edu	37	11	32637520	32637520	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:32637520delT	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													21	46	---	---	---	---						.
OR5D14	219436	broad.mit.edu	37	11	55563305	55563305	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:55563305delA	uc010rim.1	+	1	274	c.274delA	c.(274-276)AAAfs	p.K92fs		NM_001004735	NP_001004735	Q8NGL3	OR5DE_HUMAN	olfactory receptor, family 5, subfamily D,	92	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3		all_epithelial(135;0.196)				AATGGCAGATAAAAGCATCTT	0.443													22	46	---	---	---	---						.
FADS1	3992	broad.mit.edu	37	11	61572224	61572224	+	Frame_Shift_Del	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr11:61572224delG	uc010rlm.1	-	7	1114	c.986delC	c.(985-987)CCAfs	p.P329fs	FADS1_uc001nsh.2_Frame_Shift_Del_p.P188fs|FADS1_uc010rln.1_Frame_Shift_Del_p.P188fs	NM_013402	NP_037534	O60427	FADS1_HUMAN	fatty acid desaturase 1	272	Helical; (Potential).				cell-cell signaling|cellular response to starvation|electron transport chain|icosanoid biosynthetic process|phospholipid biosynthetic process|regulation of cell differentiation|regulation of transcription, DNA-dependent|transport	endoplasmic reticulum membrane|integral to membrane|microsome	C-5 sterol desaturase activity|heme binding|protein binding			central_nervous_system(1)	1					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	CAGCAAGGCTGGGGGCCCAAC	0.527													16	34	---	---	---	---						.
MON2	23041	broad.mit.edu	37	12	62946678	62946678	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:62946678delT	uc001sre.2	+	24	3325	c.2934delT	c.(2932-2934)TATfs	p.Y978fs	MON2_uc009zqj.2_Frame_Shift_Del_p.Y978fs|MON2_uc010ssl.1_Frame_Shift_Del_p.Y906fs|MON2_uc010ssm.1_Frame_Shift_Del_p.Y955fs|MON2_uc010ssn.1_Frame_Shift_Del_p.Y978fs|MON2_uc001srf.2_Frame_Shift_Del_p.Y741fs	NM_015026	NP_055841	Q7Z3U7	MON2_HUMAN	MON2 homolog	979					Golgi to endosome transport|protein transport	cytoplasm	ARF guanyl-nucleotide exchange factor activity|binding			central_nervous_system(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.218)	GBM - Glioblastoma multiforme(28;0.128)		TTTCAGATTATTTTTTCCAAA	0.333													37	76	---	---	---	---						.
ASCL4	121549	broad.mit.edu	37	12	108169097	108169097	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr12:108169097delC	uc001tmr.2	+	1	936	c.105delC	c.(103-105)GACfs	p.D35fs		NM_203436	NP_982260	Q6XD76	ASCL4_HUMAN	achaete-scute complex-like 4	34					regulation of transcription from RNA polymerase II promoter|skin development|transcription, DNA-dependent	nucleus	DNA binding			central_nervous_system(1)	1						CGCGGAGGGACCCCCTCAGGG	0.741													11	12	---	---	---	---						.
LOC643677	643677	broad.mit.edu	37	13	103390904	103390905	+	Frame_Shift_Ins	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr13:103390904_103390905insT	uc001vpm.2	-	4	12282_12283	c.12142_12143insA	c.(12142-12144)ATTfs	p.I4048fs		NM_001146197	NP_001139669			hypothetical protein LOC643677												0						CAAAGCCCTAATTTTTTCCATT	0.317													4	8	---	---	---	---						.
Unknown	0	broad.mit.edu	37	14	98099393	98099396	+	RNA	DEL	TGTG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr14:98099393_98099396delTGTG	uc001yfv.1	-	4		c.1258_1261delCACA								human full-length cDNA clone CS0DI087YB20 of Placenta of Homo sapiens (human).																		AAATtgtgtatgtgtgtgtgtgtg	0.127													3	3	---	---	---	---						.
PIAS1	8554	broad.mit.edu	37	15	68438921	68438921	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr15:68438921delA	uc002aqz.2	+	6	807	c.711delA	c.(709-711)ACAfs	p.T237fs	PIAS1_uc010ujx.1_Frame_Shift_Del_p.T237fs	NM_016166	NP_057250	O75925	PIAS1_HUMAN	protein inhibitor of activated STAT, 1	237	PINIT.				androgen receptor signaling pathway|interferon-gamma-mediated signaling pathway|JAK-STAT cascade|positive regulation of protein sumoylation|positive regulation of transcription, DNA-dependent|regulation of interferon-gamma-mediated signaling pathway|transcription, DNA-dependent	nuclear speck	androgen receptor binding|DNA binding|enzyme binding|SUMO ligase activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)	2						TTCCACCTACAAAAAATGGCG	0.378													24	53	---	---	---	---						.
MSLN	10232	broad.mit.edu	37	16	815527	815527	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:815527delC	uc002cjw.1	+	9	756	c.705delC	c.(703-705)GGCfs	p.G235fs	MSLN_uc002cjt.1_Frame_Shift_Del_p.G235fs|MSLN_uc002cju.1_Frame_Shift_Del_p.G235fs|MSLN_uc010brd.1_Frame_Shift_Del_p.G234fs|MSLN_uc002cjv.1_Frame_Shift_Del_p.G235fs|MSLN_uc002cjx.1_Frame_Shift_Del_p.G235fs|MSLN_uc002cjy.1_5'Flank	NM_013404	NP_037536	Q13421	MSLN_HUMAN	mesothelin isoform 2 preproprotein	235					cell adhesion	anchored to membrane|extracellular region|Golgi apparatus|plasma membrane				pancreas(1)	1		Hepatocellular(780;0.00335)				GTCTGCACAGCCCCCCGTCGA	0.706													7	13	---	---	---	---						.
GTF3C1	2975	broad.mit.edu	37	16	27509009	27509009	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:27509009delT	uc002dov.1	-	14	2339	c.2299delA	c.(2299-2301)AGTfs	p.S767fs	GTF3C1_uc002dou.2_Frame_Shift_Del_p.S767fs	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	767						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						TTATTATCACTTTTTTTCATC	0.433													37	66	---	---	---	---						.
ITGAM	3684	broad.mit.edu	37	16	31342999	31342999	+	Frame_Shift_Del	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr16:31342999delG	uc002ebq.2	+	30	3528	c.3430delG	c.(3430-3432)GGGfs	p.G1144fs	ITGAM_uc002ebr.2_Frame_Shift_Del_p.G1145fs|ITGAM_uc010can.2_Frame_Shift_Del_p.G550fs	NM_000632	NP_000623	P11215	ITAM_HUMAN	integrin alpha M isoform 2 precursor	1144	Cytoplasmic (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration	integrin complex	glycoprotein binding|receptor activity			kidney(1)	1						GATGAGTGAAGGGGGTCCCCC	0.672													3	6	---	---	---	---						.
EFNB3	1949	broad.mit.edu	37	17	7612856	7612856	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:7612856delC	uc002gis.2	+	5	1382	c.985delC	c.(985-987)CCCfs	p.P329fs		NM_001406	NP_001397	Q15768	EFNB3_HUMAN	ephrin-B3 precursor	329	Cytoplasmic (Potential).				cell-cell signaling|interspecies interaction between organisms	integral to plasma membrane	ephrin receptor binding|transmembrane-ephrin receptor activity			ovary(1)	1		all_cancers(10;1.14e-06)|Prostate(122;0.081)				GCAGGATGGGCCCCCCCAGAG	0.577													18	38	---	---	---	---						.
C17orf44	284029	broad.mit.edu	37	17	8124119	8124120	+	RNA	DEL	TT	-	-	rs34019859		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:8124119_8124120delTT	uc002gkp.3	-	3		c.1922_1923delAA				NR_026951				Homo sapiens cDNA FLJ34790 fis, clone NT2NE2005323.												0						CTGAGGAGGCTTTTTTTTTTTC	0.243													3	4	---	---	---	---						.
Unknown	0	broad.mit.edu	37	17	16828666	16828666	+	RNA	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:16828666delT	uc002gqr.1	-	13		c.3349delA								Homo sapiens mRNA for FLJ00050 protein, partial cds.																		GGTCCCAGTGTTTTTTTGTGA	0.612													5	4	---	---	---	---						.
EFCAB5	374786	broad.mit.edu	37	17	28296061	28296061	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:28296061delA	uc002het.2	+	4	635	c.443delA	c.(442-444)GAAfs	p.E148fs	EFCAB5_uc010wbi.1_Intron|EFCAB5_uc010wbj.1_Frame_Shift_Del_p.E92fs|EFCAB5_uc010wbk.1_Intron|EFCAB5_uc010csd.2_RNA|EFCAB5_uc010cse.2_Frame_Shift_Del_p.E27fs|EFCAB5_uc010csf.2_Frame_Shift_Del_p.E27fs	NM_198529	NP_940931	A4FU69	EFCB5_HUMAN	EF-hand calcium binding domain 5 isoform a	148							calcium ion binding			ovary(1)|skin(1)	2						AAAAAGGCTGAAAAAAAACTC	0.368													21	31	---	---	---	---						.
LHX1	3975	broad.mit.edu	37	17	35300395	35300395	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:35300395delC	uc002hnh.1	+	5	2184	c.1188delC	c.(1186-1188)CACfs	p.H396fs		NM_005568	NP_005559	P48742	LHX1_HUMAN	LIM homeobox protein 1	396					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)				ACCTGTCCCACCCCCCCGAAA	0.597													4	8	---	---	---	---						.
DNAJC7	7266	broad.mit.edu	37	17	40134398	40134398	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:40134398delT	uc002hyo.2	-	11	1343	c.1106delA	c.(1105-1107)AATfs	p.N369fs	DNAJC7_uc010cxu.2_Frame_Shift_Del_p.N313fs|DNAJC7_uc010cxv.2_Intron|DNAJC7_uc010wgb.1_Frame_Shift_Del_p.N313fs|DNAJC7_uc010wgc.1_Frame_Shift_Del_p.N227fs|DNAJC7_uc002hyp.2_Frame_Shift_Del_p.N313fs	NM_003315	NP_003306	Q99615	DNJC7_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 7	369					chaperone cofactor-dependent protein refolding	cytoplasm|cytoskeleton|nucleus	heat shock protein binding|unfolded protein binding			ovary(1)	1		all_cancers(22;0.00273)|Breast(137;0.00104)|all_epithelial(22;0.0305)				CAGCTGCGCATTTTTTAGGAG	0.468													47	88	---	---	---	---						.
PLCD3	113026	broad.mit.edu	37	17	43195797	43195797	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:43195797delC	uc002iib.2	-	6	1090	c.976delG	c.(976-978)GCTfs	p.A326fs		NM_133373	NP_588614	Q8N3E9	PLCD3_HUMAN	phospholipase C delta 3	326					intracellular signal transduction|lipid catabolic process	cleavage furrow|cytoplasm|membrane	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			breast(2)|lung(1)	3					Phosphatidylserine(DB00144)	TCCAAGGCAGCCCCCTCCGGC	0.572													22	46	---	---	---	---						.
HSF5	124535	broad.mit.edu	37	17	56565340	56565340	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr17:56565340delC	uc002iwi.1	-	1	420	c.296delG	c.(295-297)GGCfs	p.G99fs		NM_001080439	NP_001073908	Q4G112	HSF5_HUMAN	heat shock transcription factor family member 5	99	By similarity.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Medulloblastoma(34;0.127)|all_neural(34;0.237)					CGGTTTGCCGCCCCCCGGCCC	0.637													4	8	---	---	---	---						.
FHOD3	80206	broad.mit.edu	37	18	34205516	34205516	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:34205516delC	uc002kzt.1	+	10	1097	c.1000delC	c.(1000-1002)CCCfs	p.P334fs	FHOD3_uc002kzr.1_Frame_Shift_Del_p.P334fs|FHOD3_uc002kzs.1_Frame_Shift_Del_p.P334fs|FHOD3_uc002kzu.1_Frame_Shift_Del_p.P159fs|FHOD3_uc010dmz.1_Frame_Shift_Del_p.P87fs	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	334	GBD/FH3.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				CACGGAGCCACCCCCCAGTGG	0.677													24	35	---	---	---	---						.
KIAA0427	9811	broad.mit.edu	37	18	46163043	46163043	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:46163043delC	uc002ldc.2	+	3	524	c.239delC	c.(238-240)GCCfs	p.A80fs	KIAA0427_uc002ldd.2_Frame_Shift_Del_p.A80fs	NM_014772	NP_055587	O43310	CTIF_HUMAN	hypothetical protein LOC9811 isoform 1	80	Interaction with NCBP1/CBP80.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational initiation	perinuclear region of cytoplasm	protein binding				0						CGAGGGCGAGCCCCCCCACAG	0.642													8	16	---	---	---	---						.
ZCCHC2	54877	broad.mit.edu	37	18	60242530	60242530	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:60242530delT	uc002lip.3	+	13	3216	c.3216delT	c.(3214-3216)CCTfs	p.P1072fs	ZCCHC2_uc002lio.2_RNA|ZCCHC2_uc002liq.2_Frame_Shift_Del_p.P542fs	NM_017742	NP_060212	Q9C0B9	ZCHC2_HUMAN	zinc finger, CCHC domain containing 2	1072					cell communication	cytoplasm	nucleic acid binding|phosphatidylinositol binding|zinc ion binding			lung(1)|prostate(1)	2						ACCAACTTCCTTTTTTTCTGC	0.488													28	38	---	---	---	---						.
LOC284276	284276	broad.mit.edu	37	18	74270343	74270343	+	RNA	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr18:74270343delG	uc002lmg.2	+	3		c.802delG				NR_015417				Homo sapiens cDNA FLJ36617 fis, clone TRACH2016481.												0						CTGCAGCCTCGGGGGGGGCCA	0.453													5	3	---	---	---	---						.
RAVER1	125950	broad.mit.edu	37	19	10439650	10439651	+	Frame_Shift_Ins	INS	-	G	G			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:10439650_10439651insG	uc002moa.2	-	3	554_555	c.474_475insC	c.(472-477)CCCAGCfs	p.P158fs		NM_133452	NP_597709	Q8IY67	RAVR1_HUMAN	RAVER1	141_142	RRM 2.					cytoplasm|nucleus	nucleotide binding|protein binding|RNA binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(20;1.81e-09)|Epithelial(33;3.65e-06)|all cancers(31;8.35e-06)			TGTGTGAGGCTGGGGGGCAGGT	0.649													2	4	---	---	---	---						.
Unknown	0	broad.mit.edu	37	19	21639084	21639084	+	RNA	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:21639084delA	uc002npz.2	-	2		c.448delT								Homo sapiens mRNA; cDNA DKFZp779J0122 (from clone DKFZp779J0122).																		catgagatataacttctataa	0.000													2	4	---	---	---	---						.
Unknown	0	broad.mit.edu	37	19	28222319	28222319	+	RNA	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:28222319delA	uc002nrw.1	-	3		c.1342delT								Homo sapiens cDNA FLJ36869 fis, clone ASTRO2016819.																		tagattctacaaaaaaaagta	0.000													4	2	---	---	---	---						.
ZNF71	58491	broad.mit.edu	37	19	57132721	57132721	+	Frame_Shift_Del	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr19:57132721delG	uc002qnm.3	+	3	304	c.66delG	c.(64-66)ACGfs	p.T22fs		NM_021216	NP_067039	Q9NQZ8	ZNF71_HUMAN	zinc finger protein 71	22						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(193;0.062)|Lung(386;0.0681)|LUSC - Lung squamous cell carcinoma(496;0.18)		GGGAGGCCACGGGGGGACCCA	0.557													12	24	---	---	---	---						.
Unknown	0	broad.mit.edu	37	2	21910579	21910579	+	RNA	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:21910579delG	uc002ree.1	-	3		c.1825delC								Homo sapiens cDNA FLJ33301 fis, clone BNGH42002244.																		aaaagaaactgggattcagag	0.020													2	4	---	---	---	---						.
CHAC2	494143	broad.mit.edu	37	2	53995031	53995031	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:53995031delT	uc002rxk.1	+	1	103	c.8delT	c.(7-9)GTTfs	p.V3fs	ASB3_uc002rxg.1_Intron|ASB3_uc002rxh.1_Intron|ASB3_uc002rxi.3_Intron|ASB3_uc010yoo.1_Intron	NM_001008708	NP_001008708	Q8WUX2	CHAC2_HUMAN	ChaC, cation transport regulator-like 2	3											0			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			AAGATGTGGGTTTTTGGTTAC	0.622											OREG0014616	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	7	---	---	---	---						.
Unknown	0	broad.mit.edu	37	2	56309533	56309533	+	RNA	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:56309533delA	uc002rzk.2	+	2		c.112delA			uc002rzl.1_Intron					Homo sapiens, clone IMAGE:3873411, mRNA.																		CTTGagtgagaaaaaaaatgg	0.164													2	4	---	---	---	---						.
LOC729234	729234	broad.mit.edu	37	2	96687157	96687157	+	RNA	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:96687157delC	uc010fht.2	+	3		c.333delC				NR_003698				Homo sapiens fumarylacetoacetate hydrolase domain containing 2 pseudogene (LOC729234), non-coding RNA.												0						CTGACTGGGACCCCCCCACCT	0.562													5	10	---	---	---	---						.
NBEAL1	65065	broad.mit.edu	37	2	203922058	203922058	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr2:203922058delA	uc002uzt.3	+	6	730	c.397delA	c.(397-399)AAAfs	p.K133fs	NBEAL1_uc002uzq.3_Frame_Shift_Del_p.K133fs|NBEAL1_uc010zid.1_Frame_Shift_Del_p.K82fs|NBEAL1_uc010zie.1_RNA	NM_001114132	NP_001107604	Q6ZS30	NBEL1_HUMAN	neurobeachin-like 1 isoform 3	133							binding			ovary(1)|skin(1)	2						GTTAAAAAGCAAAAAAAAAGA	0.318													3	6	---	---	---	---						.
Unknown	0	broad.mit.edu	37	20	5177237	5177237	+	RNA	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr20:5177237delT	uc002wlw.2	+	1		c.1371delT								Homo sapiens cDNA FLJ12936 fis, clone NT2RP2005018.																		TTTGGATGCCTTTTTTTGACA	0.453													3	4	---	---	---	---						.
CBS	875	broad.mit.edu	37	21	44492285	44492285	+	Frame_Shift_Del	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:44492285delG	uc002zcu.2	-	3	264	c.19delC	c.(19-21)CAGfs	p.Q7fs	CBS_uc002zct.2_Frame_Shift_Del_p.Q7fs|CBS_uc002zcw.3_Frame_Shift_Del_p.Q7fs|CBS_uc002zcv.2_Frame_Shift_Del_p.Q7fs	NM_000071	NP_000062	P35520	CBS_HUMAN	cystathionine-beta-synthase	7					cysteine biosynthetic process from serine|cysteine biosynthetic process via cystathionine|homocysteine catabolic process|hydrogen sulfide biosynthetic process|L-cysteine catabolic process|L-serine catabolic process	cytosol|nucleolus	cystathionine beta-synthase activity|heme binding|protein homodimerization activity|pyridoxal phosphate binding|ubiquitin protein ligase binding				0					L-Cysteine(DB00151)|L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)|Pyridoxine(DB00165)|S-Adenosylmethionine(DB00118)	ACTTCTGCCTGGGGGGTCTCA	0.662													4	2	---	---	---	---						.
KRTAP10-9	386676	broad.mit.edu	37	21	46047615	46047615	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr21:46047615delC	uc002zfp.3	+	1	576	c.527delC	c.(526-528)TCCfs	p.S176fs	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198690	NP_941963	P60411	KR109_HUMAN	keratin associated protein 10-9	176	16.|25 X 5 AA repeats of C-C-X(3).					keratin filament					0						TGCACTTCCTCCCCCTGCCAG	0.552													92	185	---	---	---	---						.
TUG1	55000	broad.mit.edu	37	22	31367602	31367602	+	RNA	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr22:31367602delT	uc003ajf.1	+	1		c.1969delT			TUG1_uc003ajg.2_RNA|TUG1_uc003ajh.2_RNA|TUG1_uc003aji.2_RNA|TUG1_uc003ajj.2_5'Flank					Homo sapiens cDNA FLJ20618 fis, clone KAT05049.												0						TGGAGGTAGATTTTTTTTTAT	0.458													8	7	---	---	---	---						.
FYCO1	79443	broad.mit.edu	37	3	45965219	45965221	+	In_Frame_Del	DEL	CTC	-	-	rs148020105		TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:45965219_45965221delCTC	uc003cpb.3	-	17	4494_4496	c.4288_4290delGAG	c.(4288-4290)GAGdel	p.E1430del	FYCO1_uc011bal.1_In_Frame_Del_p.E1450del	NM_024513	NP_078789	Q9BQS8	FYCO1_HUMAN	FYVE and coiled-coil domain containing 1	1430	GOLD.				transport	integral to membrane	metal ion binding|protein binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00147)|KIRC - Kidney renal clear cell carcinoma(197;0.0272)|Kidney(197;0.0323)		CCTGGATGTTCTCCTTGTGGGAG	0.581													36	83	---	---	---	---						.
DVL3	1857	broad.mit.edu	37	3	183888381	183888381	+	Frame_Shift_Del	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr3:183888381delC	uc003fms.2	+	15	2129	c.1989delC	c.(1987-1989)GGCfs	p.G663fs	DVL3_uc011bqw.1_Frame_Shift_Del_p.G646fs|DVL3_uc003fmt.2_Frame_Shift_Del_p.G334fs|DVL3_uc003fmu.2_Frame_Shift_Del_p.G495fs	NM_004423	NP_004414	Q92997	DVL3_HUMAN	dishevelled 3	663					canonical Wnt receptor signaling pathway|intracellular signal transduction|positive regulation of JUN kinase activity|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent	cytoplasm	beta-catenin binding|frizzled binding|protease binding|protein heterodimerization activity|signal transducer activity			ovary(1)|lung(1)|breast(1)	3	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.08e-34)|OV - Ovarian serous cystadenocarcinoma(80;1.31e-22)			CTCTCTACGGCCCCCCCATGC	0.736													4	9	---	---	---	---						.
Unknown	0	broad.mit.edu	37	4	6239339	6239339	+	RNA	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:6239339delA	uc003giw.1	+	5		c.1842delA								Homo sapiens cDNA FLJ33698 fis, clone BRAWH2004779.																		GATGAAGAATAAAGTTTTCAA	0.159													2	4	---	---	---	---						.
FRYL	285527	broad.mit.edu	37	4	48604083	48604083	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:48604083delA	uc003gyh.1	-	13	1594	c.989delT	c.(988-990)TTAfs	p.L330fs	FRYL_uc003gyk.2_Frame_Shift_Del_p.L330fs	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	330					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						CCAGTTATTTAAAAAAAATTG	0.308													25	49	---	---	---	---						.
AFP	174	broad.mit.edu	37	4	74313372	74313372	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:74313372delA	uc003hgz.1	+	8	1084	c.1037delA	c.(1036-1038)GAAfs	p.E346fs	AFP_uc003hha.1_Frame_Shift_Del_p.E346fs|AFP_uc011cbg.1_Frame_Shift_Del_p.E120fs	NM_001134	NP_001125	P02771	FETA_HUMAN	alpha-fetoprotein precursor	346	Albumin 2.				transport		metal ion binding			ovary(1)	1	Breast(15;0.00102)		Epithelial(6;2.42e-05)|all cancers(17;0.000268)|OV - Ovarian serous cystadenocarcinoma(6;0.000324)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			TCTTCAGGGGAAAAAAATATC	0.338									Alpha-Fetoprotein_Hereditary_Persistence_of				18	37	---	---	---	---						.
TNIP3	79931	broad.mit.edu	37	4	122075764	122075764	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:122075764delT	uc010ing.2	-	5	630	c.434delA	c.(433-435)AATfs	p.N145fs	TNIP3_uc010inh.2_Frame_Shift_Del_p.N145fs|TNIP3_uc011cgj.1_Frame_Shift_Del_p.N203fs|TNIP3_uc010ini.2_Frame_Shift_Del_p.N145fs	NM_024873	NP_079149	Q96KP6	TNIP3_HUMAN	TNFAIP3 interacting protein 3	145	Potential.									ovary(1)	1						CGCAAGAGTATTTTTTCCCTT	0.333													19	35	---	---	---	---						.
LOC285419	285419	broad.mit.edu	37	4	124585419	124585419	+	RNA	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:124585419delT	uc003ifc.2	+	3		c.2694delT			LOC285419_uc011cgn.1_Intron					Homo sapiens mRNA; cDNA DKFZp686P12109 (from clone DKFZp686P12109).												0						TTGTGGAAAGTTTTTTTTTTT	0.154													6	0	---	---	---	---						.
Unknown	0	broad.mit.edu	37	4	189459065	189459065	+	RNA	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr4:189459065delT	uc003izp.1	+	6		c.1791delT								Homo sapiens cDNA FLJ38649 fis, clone HHDPC2007302.																		CCCTGTATGGTTTTTTTTTTT	0.383													2	4	---	---	---	---						.
AUTS2	26053	broad.mit.edu	37	7	70229815	70229816	+	Frame_Shift_Ins	INS	-	C	C			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:70229815_70229816insC	uc003tvw.3	+	8	2035_2036	c.1292_1293insC	c.(1291-1293)TTCfs	p.F431fs	AUTS2_uc003tvx.3_Frame_Shift_Ins_p.F431fs|AUTS2_uc011keg.1_5'Flank	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	431										ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		gcctccccgttccccctctccc	0.163													7	8	---	---	---	---						.
Unknown	0	broad.mit.edu	37	7	124784143	124784143	+	RNA	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr7:124784143delA	uc010lkx.1	+	11		c.2798delA			uc003vlp.2_RNA|uc003vlq.1_Intron					Homo sapiens cDNA FLJ33356 fis, clone BRACE2005160.																		TTAAGCACTGAAAAAAAGTCC	0.393													4	5	---	---	---	---						.
PDGFRL	5157	broad.mit.edu	37	8	17486241	17486241	+	Frame_Shift_Del	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:17486241delG	uc003wxr.2	+	4	812	c.751delG	c.(751-753)GGGfs	p.G251fs		NM_006207	NP_006198	Q15198	PGFRL_HUMAN	platelet-derived growth factor receptor-like	251						extracellular region	platelet activating factor receptor activity|platelet-derived growth factor beta-receptor activity				0				Colorectal(111;0.0752)		GGCGGAGGCCGGGGGCAGATC	0.552													16	36	---	---	---	---						.
Unknown	0	broad.mit.edu	37	8	128220167	128220168	+	RNA	DEL	TC	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr8:128220167_128220168delTC	uc003ysa.1	-	2		c.2074_2075delGA								Homo sapiens cDNA FLJ43320 fis, clone NT2RI2024935.																		GTTTTTTTTTTCCCCCTCAATT	0.188													2	4	---	---	---	---						.
TOPORS	10210	broad.mit.edu	37	9	32544122	32544122	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chr9:32544122delT	uc003zrb.2	-	3	568	c.401delA	c.(400-402)AACfs	p.N134fs	TOPORS_uc003zrc.2_Frame_Shift_Del_p.N67fs	NM_005802	NP_005793	Q9NS56	TOPRS_HUMAN	topoisomerase I binding, arginine/serine-rich	134	E3 ubiquitin-protein ligase activity.|Required for DNA-binding.|RING-type.				DNA damage response, signal transduction resulting in induction of apoptosis|maintenance of protein location in nucleus|proteasomal ubiquitin-dependent protein catabolic process|protein sumoylation|transcription, DNA-dependent	nuclear speck|PML body	antigen binding|DNA binding|DNA topoisomerase I binding|SUMO ligase activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.0018)		TTCAGCTTTGTTTTTTGACCA	0.398													60	81	---	---	---	---						.
Unknown	0	broad.mit.edu	37	X	2583923	2583923	+	RNA	DEL	C	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:2583923delC	uc004cql.2	+	1		c.1579delC								Homo sapiens cDNA FLJ39679 fis, clone SMINT2010068.																		tcaccagccacccccctcacc	0.000													2	4	---	---	---	---						.
MXRA5	25878	broad.mit.edu	37	X	3240185	3240185	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:3240185delA	uc004crg.3	-	5	3698	c.3541delT	c.(3541-3543)TCTfs	p.S1181fs		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	1181						extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				GGTTGAGTAGAAAAAGTCTCT	0.488													33	25	---	---	---	---						.
FAM9A	171482	broad.mit.edu	37	X	8763306	8763307	+	In_Frame_Ins	INS	-	CTG	CTG			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:8763306_8763307insCTG	uc004csg.2	-	7	754_755	c.643_644insCAG	c.(643-645)GAA>GCAGAA	p.214_215insA		NM_174951	NP_777611	Q8IZU1	FAM9A_HUMAN	family with sequence similarity 9, member A	214_215	Glu-rich.					nucleolus					0		Hepatocellular(5;0.219)				TACTATTACTTctgctgctgct	0.074													2	4	---	---	---	---						.
CA5B	11238	broad.mit.edu	37	X	15790676	15790676	+	Frame_Shift_Del	DEL	G	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:15790676delG	uc004cxe.2	+	4	515	c.398delG	c.(397-399)TGGfs	p.W133fs		NM_007220	NP_009151	Q9Y2D0	CAH5B_HUMAN	carbonic anhydrase VB, mitochondrial precursor	133					one-carbon metabolic process	mitochondrion	carbonate dehydratase activity|zinc ion binding				0	Hepatocellular(33;0.183)					CATTTTCACTGGGGGGCCATC	0.498													55	77	---	---	---	---						.
DMD	1756	broad.mit.edu	37	X	31227807	31227808	+	Frame_Shift_Del	DEL	AA	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:31227807_31227808delAA	uc004dda.1	-	65	9614_9615	c.9370_9371delTT	c.(9370-9372)TTGfs	p.L3124fs	DMD_uc004dcq.1_Frame_Shift_Del_p.L395fs|DMD_uc004dcr.1_Frame_Shift_Del_p.L664fs|DMD_uc004dcs.1_Frame_Shift_Del_p.L664fs|DMD_uc004dct.1_Frame_Shift_Del_p.L664fs|DMD_uc004dcu.1_Frame_Shift_Del_p.L664fs|DMD_uc004dcv.1_Frame_Shift_Del_p.L664fs|DMD_uc004dcw.2_Frame_Shift_Del_p.L1780fs|DMD_uc004dcx.2_Frame_Shift_Del_p.L1783fs|DMD_uc004dcz.2_Frame_Shift_Del_p.L3001fs|DMD_uc004dcy.1_Frame_Shift_Del_p.L3120fs|DMD_uc004ddb.1_Frame_Shift_Del_p.L3116fs|DMD_uc004dcm.1_Frame_Shift_Del_p.L56fs|DMD_uc004dcn.1_Frame_Shift_Del_p.L56fs|DMD_uc004dco.1_Frame_Shift_Del_p.L56fs|DMD_uc004dcp.1_Frame_Shift_Del_p.L56fs|DMD_uc011mkb.1_Frame_Shift_Del_p.L56fs|DMD_uc010ngm.2_Frame_Shift_Del_p.L56fs	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	3124	Interaction with SYNM (By similarity).				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				TGACAGGCTCAAGAGATCCACT	0.416													21	8	---	---	---	---						.
BCOR	54880	broad.mit.edu	37	X	39913265	39913265	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:39913265delA	uc004den.3	-	14	5142	c.4850delT	c.(4849-4851)TTAfs	p.L1617fs	BCOR_uc004dep.3_Frame_Shift_Del_p.L1583fs|BCOR_uc004deo.3_Frame_Shift_Del_p.L1565fs|BCOR_uc010nhb.2_Frame_Shift_Del_p.L325fs|BCOR_uc004dem.3_Frame_Shift_Del_p.L1583fs	NM_001123385	NP_001116857	Q6W2J9	BCOR_HUMAN	BCL-6 interacting corepressor isoform c	1617					heart development|histone H2A monoubiquitination|negative regulation of bone mineralization|negative regulation of histone H3-K36 methylation|negative regulation of histone H3-K4 methylation|negative regulation of tooth mineralization|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|specification of axis polarity|transcription, DNA-dependent	nucleus	heat shock protein binding|histone deacetylase binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4						GGGGTTGGCTAAAACATCATA	0.438													17	13	---	---	---	---						.
WDR45	11152	broad.mit.edu	37	X	48933099	48933101	+	In_Frame_Del	DEL	AGG	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:48933099_48933101delAGG	uc004dmk.1	-	9	921_923	c.749_751delCCT	c.(748-753)TCCTTC>TTC	p.S250del	PRAF2_uc004dmh.2_5'Flank|PRAF2_uc004dmi.2_5'Flank|PRAF2_uc011mmt.1_In_Frame_Del_p.S148del|WDR45_uc004dmj.1_In_Frame_Del_p.S211del|WDR45_uc004dml.1_In_Frame_Del_p.S251del|WDR45_uc004dmm.1_In_Frame_Del_p.S215del|WDR45_uc010nim.1_Intron|WDR45_uc004dmn.1_In_Frame_Del_p.S141del|WDR45_uc004dmo.1_In_Frame_Del_p.S273del|WDR45_uc004dmp.1_In_Frame_Del_p.S251del	NM_001029896	NP_001025067	Q9Y484	WIPI4_HUMAN	WD repeat domain 45 isoform 2	250	WD 3.				autophagy|response to starvation	organelle membrane	phosphatidylinositol-3,5-bisphosphate binding			ovary(1)	1						GCGCAGAGGAAGGAGGAGTCGTG	0.562													4	8	---	---	---	---						.
FAM123B	139285	broad.mit.edu	37	X	63412648	63412648	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:63412648delA	uc004dvo.2	-	2	792	c.519delT	c.(517-519)TTTfs	p.F173fs		NM_152424	NP_689637	Q5JTC6	F123B_HUMAN	family with sequence similarity 123B	173					Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane		p.0?(40)|p.F173fs*36(2)		kidney(99)|large_intestine(6)|ovary(3)|lung(2)|breast(1)|liver(1)	112						GGATACTGCTAAAAAAGCCTT	0.562													12	26	---	---	---	---						.
DLG3	1741	broad.mit.edu	37	X	69722114	69722115	+	Frame_Shift_Del	DEL	CT	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:69722114_69722115delCT	uc004dyi.1	+	19	2777_2778	c.2449_2450delCT	c.(2449-2451)CTCfs	p.L817fs	DLG3_uc004dyj.1_Frame_Shift_Del_p.L512fs|DLG3_uc011mpn.1_Frame_Shift_Del_p.L365fs	NM_021120	NP_066943	Q92796	DLG3_HUMAN	synapse-associated protein 102 isoform a	817					axon guidance|negative regulation of cell proliferation|synaptic transmission	plasma membrane	guanylate kinase activity			large_intestine(1)|pancreas(1)	2	Renal(35;0.156)					CCCTGAAAAACTCTGAAGAATC	0.455													13	6	---	---	---	---						.
HMGN5	79366	broad.mit.edu	37	X	80370463	80370463	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:80370463delT	uc004eee.1	-	7	863	c.534delA	c.(532-534)AAAfs	p.K178fs		NM_030763	NP_110390	P82970	HMGN5_HUMAN	high-mobility group nucleosome binding domain 5	178					chromatin modification|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromatin|nucleolus	chromatin binding|DNA binding			lung(1)	1						cgtcttcacctttttttccat	0.005													3	5	---	---	---	---						.
MCF2	4168	broad.mit.edu	37	X	138701772	138701773	+	Frame_Shift_Ins	INS	-	T	T			TCGA-BR-4184-01A-01D-1126-08	TCGA-BR-4184-11A-01D-1126-08									Somatic	Phase_I	Capture				Illumina GAIIx	5d19854c-b88b-42a6-aac4-4daed4ed5b7e	6be02310-66c9-482c-8a7d-a281d25f5102	g.chrX:138701772_138701773insT	uc004fau.2	-	7	1074_1075	c.780_781insA	c.(778-783)AAATTGfs	p.K260fs	MCF2_uc004fav.2_Frame_Shift_Ins_p.K260fs|MCF2_uc011mwl.1_Frame_Shift_Ins_p.K221fs|MCF2_uc010nsh.1_Frame_Shift_Ins_p.K260fs|MCF2_uc011mwm.1_Frame_Shift_Ins_p.K221fs|MCF2_uc011mwn.1_Frame_Shift_Ins_p.K405fs|MCF2_uc004faw.2_Frame_Shift_Ins_p.K320fs|MCF2_uc011mwo.1_Frame_Shift_Ins_p.K320fs	NM_005369	NP_005360	P10911	MCF2_HUMAN	MCF.2 cell line derived transforming sequence	260_261	Spectrin.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|membrane|membrane fraction	protein binding|Rho guanyl-nucleotide exchange factor activity			lung(1)|pleura(1)	2	Acute lymphoblastic leukemia(192;0.000127)					AAGTTTTCCAATTTTTTTATTT	0.307													11	12	---	---	---	---						.
